Trying to patch Mononoki, having some issues

[mearleycf]

fontforge -script ~/Downloads/Nerd\ Fonts\ Patcher/font-patcher ~/patched_fonts/mononoki-nerd-fontv2/mononoki-Regular.ttf --complete --outputdir ~/patched_fonts/mononoki-nerd-font-v2/1.0.0/

So I downloaded the Mononoki original font (not the archived nerd font version), because I wanted to patch it with all of the font sets available in font-patcher. The old patched font is missing a ton of glyphs.
I then ran the above command, and everything did process correctly. However, when I opened in fontforge GUI, almost all of the glyphs were off-center to the right. I selected them all and adjusted center width on them, which was great, but then when I tried to generate the resulting font into a TTF file, it started throwing a lot of errors. Stuff like 'missing points at extrema', 'there is another glyph in the font with this name', 'wrong direction', 'self intersecting', 'bad glyph name'. I think that's pretty much it--there are a lot of errors--I'd say almost every glyph is incorrect. This doesn't seem like the correct behavior? I did some research, and tried to fix it by adding extrema, using rounded integers, etc., but it just didn't really have any effect on anything.
Here is the output of the command with --debug 2 enabled.

fontforge -script ~/Downloads/Nerd\ Fonts\ Patcher/font-patcher ~/patched_fonts/mononoki-nerd-fontv2/mononoki-Regular.ttf --complete --outputdir ~/patched_fonts/mononoki-nerd-font-v2/1.0.0/ --debug=2
Copyright (c) 2000-2023. See AUTHORS for Contributors.
 License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>
 with many parts BSD <http://fontforge.org/license.html>. Please read LICENSE.
 Version: 20230101
 Based on sources from 2023-01-01 05:27 UTC-D.
/Users/mikeearley/Downloads/Nerd Fonts Patcher/font-patcher:432: SyntaxWarning: invalid escape sequence '\='
  message = "   Generated {} fonts\n   \===> '{}'".format(len(sourceFonts), outfile)
/Users/mikeearley/Downloads/Nerd Fonts Patcher/font-patcher:448: SyntaxWarning: invalid escape sequence '\='
  message = "   {}\n   \===> '{}'".format(sourceFont.fullname, outfile)
/Users/mikeearley/Downloads/Nerd Fonts Patcher/font-patcher:2065: SyntaxWarning: invalid escape sequence '\.'
  if re.match("\.ttc$", args.extension, re.IGNORECASE):
Nerd Fonts Patcher v3.2.1 (4.14.2) (ff 20230101)
DEBUG: Naming mode 1
The following table(s) in the font have been ignored by FontForge
  Ignoring 'DSIG' digital signature table
DEBUG: Monospace check: Panose is invalid ([0, 0, 0, 0, 0, 0, 0, 0, 0, 0]); glyph-width-mono True
INFO: Setting Panose 'Family Kind' to 'Latin Text and Display' (was 'Any')
INFO: Setting Panose 'Proportion' to 'Monospaced' (was 'Any')
DEBUG: Final font cell dimensions 575 w x 1150 h
Adding 188 Glyphs from Seti-UI + Custom Set
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Adding 6 Glyphs from Heavy Angle Brackets Set
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Adding 198 Glyphs from Devicons Set
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Adding 3 Glyphs from Powerline Symbols Set
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Adding 4 Glyphs from Powerline Symbols Set
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Adding 1 Glyphs from Powerline Extra Symbols Set
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Adding 21 Glyphs from Powerline Extra Symbols Set
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Adding 1 Glyphs from Powerline Extra Symbols Set
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Adding 10 Glyphs from Powerline Extra Symbols Set
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Adding 1 Glyphs from Powerline Extra Symbols Set
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Adding 11 Glyphs from Pomicons Set
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The glyph named less is mapped to U+ED48.
But its name indicates it should be mapped to U+003C.
The glyph named box is mapped to U+ED75.
But its name indicates it should be mapped to U+25A1.
The glyph named divide is mapped to U+EDF3.
But its name indicates it should be mapped to U+00F7.
The glyph named infinity is mapped to U+EDFE.
But its name indicates it should be mapped to U+221E.
The glyph named prescription is mapped to U+EE79.
But its name indicates it should be mapped to U+211E.
The glyph named cross is mapped to U+EEC3.
But its name indicates it should be mapped to U+2629.
The glyph named chair is mapped to U+EEEE.
But its name indicates it should be mapped to U+2441.
The glyph named ring is mapped to U+EF0B.
But its name indicates it should be mapped to U+02DA.
The glyph named slash is mapped to U+EF0F.
But its name indicates it should be mapped to U+002F.
The glyph named heart is mapped to U+F004.
But its name indicates it should be mapped to U+2665.
The glyph named check is mapped to U+F00C.
But its name indicates it should be mapped to U+2713.
The glyph named house is mapped to U+F015.
But its name indicates it should be mapped to U+2302.
The glyph named image is mapped to U+F03E.
But its name indicates it should be mapped to U+22B7.
The glyph named plus is mapped to U+F067.
But its name indicates it should be mapped to U+002B.
The glyph named minus is mapped to U+F068.
But its name indicates it should be mapped to U+2212.
The glyph named asterisk is mapped to U+F069.
But its name indicates it should be mapped to U+002A.
The glyph named square is mapped to U+F0C8.
But its name indicates it should be mapped to U+25A1.
The glyph named bell is mapped to U+F0F3.
But its name indicates it should be mapped to U+2407.
The glyph named circle is mapped to U+F111.
But its name indicates it should be mapped to U+25CB.
The glyph named question is mapped to U+F128.
But its name indicates it should be mapped to U+003F.
The glyph named bullseye is mapped to U+F140.
But its name indicates it should be mapped to U+25CE.
The glyph named ellipsis is mapped to U+F141.
But its name indicates it should be mapped to U+2026.
The glyph named compass is mapped to U+F14E.
But its name indicates it should be mapped to U+263C.
The glyph named sun is mapped to U+F185.
But its name indicates it should be mapped to U+263C.
The glyph named paragraph is mapped to U+F1DD.
But its name indicates it should be mapped to U+00B6.
The glyph named copyright is mapped to U+F1F9.
But its name indicates it should be mapped to U+00A9.
The glyph named at is mapped to U+F1FA.
But its name indicates it should be mapped to U+0040.
The glyph named venus is mapped to U+F221.
But its name indicates it should be mapped to U+2640.
The glyph named mars is mapped to U+F222.
But its name indicates it should be mapped to U+2642.
The glyph named trademark is mapped to U+F25C.
But its name indicates it should be mapped to U+2122.
The glyph named registered is mapped to U+F25D.
But its name indicates it should be mapped to U+00AE.
The glyph named percent is mapped to U+F295.
But its name indicates it should be mapped to U+0025.
The glyph named diamond is mapped to U+F29F.
But its name indicates it should be mapped to U+2666.
Adding 1475 Glyphs from Font Awesome Set
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The glyph named slash is mapped to U+E016.
But its name indicates it should be mapped to U+002F.
The glyph named pi is mapped to U+E02C.
But its name indicates it should be mapped to U+03C0.
The glyph named ring is mapped to U+E03D.
But its name indicates it should be mapped to U+02DA.
The glyph named infinity is mapped to U+E055.
But its name indicates it should be mapped to U+221E.
The glyph named equal is mapped to U+E079.
But its name indicates it should be mapped to U+003D.
Adding 170 Glyphs from Font Awesome Extension Set
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Adding 4 Glyphs from Power Symbols Set
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Adding 1 Glyphs from Power Symbols Set
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The glyph named alpha is mapped to U+F002B.
But its name indicates it should be mapped to U+03B1.
The glyph named at is mapped to U+F0065.
But its name indicates it should be mapped to U+0040.
The glyph named backspace is mapped to U+F006E.
But its name indicates it should be mapped to U+2408.
The glyph named bell is mapped to U+F009A.
But its name indicates it should be mapped to U+2407.
The glyph named beta is mapped to U+F00A1.
But its name indicates it should be mapped to U+03B2.
The glyph named box is mapped to U+F00D4.
But its name indicates it should be mapped to U+25A1.
The glyph named check is mapped to U+F012C.
But its name indicates it should be mapped to U+2713.
The glyph named compass is mapped to U+F018B.
But its name indicates it should be mapped to U+263C.
The glyph named delete is mapped to U+F01B4.
But its name indicates it should be mapped to U+2421.
The glyph named delta is mapped to U+F01C2.
But its name indicates it should be mapped to U+03B4.
The glyph named earth is mapped to U+F01E7.
But its name indicates it should be mapped to U+2641.
The glyph named equal is mapped to U+F01FC.
But its name indicates it should be mapped to U+003D.
The glyph named heart is mapped to U+F02D1.
But its name indicates it should be mapped to U+2665.
The glyph named home is mapped to U+F02DC.
But its name indicates it should be mapped to U+21B8.
The glyph named image is mapped to U+F02E9.
But its name indicates it should be mapped to U+22B7.
The glyph named minus is mapped to U+F0374.
But its name indicates it should be mapped to U+2212.
The glyph named omega is mapped to U+F03C9.
But its name indicates it should be mapped to U+03C9.
The glyph named percent is mapped to U+F03F0.
But its name indicates it should be mapped to U+0025.
The glyph named pi is mapped to U+F03FF.
But its name indicates it should be mapped to U+03C0.
The glyph named plus is mapped to U+F0415.
But its name indicates it should be mapped to U+002B.
The glyph named sigma is mapped to U+F04A0.
But its name indicates it should be mapped to U+03C3.
The glyph named tie is mapped to U+F0519.
But its name indicates it should be mapped to U+2040.
The glyph named triangle is mapped to U+F0536.
But its name indicates it should be mapped to U+25B3.
The glyph named bullseye is mapped to U+F05DD.
But its name indicates it should be mapped to U+25CE.
The glyph named copyright is mapped to U+F05E6.
But its name indicates it should be mapped to U+00A9.
The glyph named lambda is mapped to U+F0627.
But its name indicates it should be mapped to U+03BB.
The glyph named asterisk is mapped to U+F06C4.
But its name indicates it should be mapped to U+002A.
The glyph named hook is mapped to U+F06E2.
But its name indicates it should be mapped to U+2440.
The glyph named infinity is mapped to U+F06E4.
But its name indicates it should be mapped to U+221E.
The glyph named prescription is mapped to U+F0706.
But its name indicates it should be mapped to U+211E.
The glyph named tilde is mapped to U+F0725.
But its name indicates it should be mapped to U+02DC.
The glyph named cancel is mapped to U+F073A.
But its name indicates it should be mapped to U+2418.
The glyph named square is mapped to U+F0764.
But its name indicates it should be mapped to U+25A1.
The glyph named null is mapped to U+F07E2.
But its name indicates it should be mapped to U+2400.
The glyph named pipe is mapped to U+F07E5.
But its name indicates it should be mapped to U+01C0.
The glyph named ring is mapped to U+F07EB.
But its name indicates it should be mapped to U+02DA.
The glyph named cross is mapped to U+F0953.
But its name indicates it should be mapped to U+2629.
The glyph named trademark is mapped to U+F0A78.
But its name indicates it should be mapped to U+2122.
The glyph named ampersand is mapped to U+F0A8D.
But its name indicates it should be mapped to U+0026.
The glyph named diamond is mapped to U+F0B8A.
But its name indicates it should be mapped to U+2666.
The glyph named bullet is mapped to U+F0CF3.
But its name indicates it should be mapped to U+2022.
The glyph named comma is mapped to U+F0E23.
But its name indicates it should be mapped to U+002C.
The glyph named rectangle is mapped to U+F0E5E.
But its name indicates it should be mapped to U+25AD.
The glyph named spade is mapped to U+F0E65.
But its name indicates it should be mapped to U+2660.
The glyph named epsilon is mapped to U+F10E0.
But its name indicates it should be mapped to U+03B5.
The glyph named gamma is mapped to U+F10EE.
But its name indicates it should be mapped to U+03B3.
Adding 6896 Glyphs from Material Set
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The following table(s) in the font have been ignored by FontForge
  Ignoring 'webf'
Adding 228 Glyphs from Weather Icons Set
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Adding 118 Glyphs from Font Logos Set
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The glyph named question is mapped to U+F02C.
But its name indicates it should be mapped to U+003F.
The glyph named check is mapped to U+F03A.
But its name indicates it should be mapped to U+2713.
The glyph named plus is mapped to U+F05D.
But its name indicates it should be mapped to U+002B.
The glyph named x is mapped to U+F081.
But its name indicates it should be mapped to U+0078.
The glyph named home is mapped to U+F08D.
But its name indicates it should be mapped to U+21B8.
The glyph named ellipsis is mapped to U+F09A.
But its name indicates it should be mapped to U+2026.
The glyph named bell is mapped to U+F0DE.
But its name indicates it should be mapped to U+2407.
The glyph named circle is mapped to U+F27D.
But its name indicates it should be mapped to U+25CB.
The glyph named diamond is mapped to U+F292.
But its name indicates it should be mapped to U+2666.
The glyph named image is mapped to U+F2B8.
But its name indicates it should be mapped to U+22B7.
The glyph named infinity is mapped to U+F2B9.
But its name indicates it should be mapped to U+221E.
The glyph named square is mapped to U+F2F0.
But its name indicates it should be mapped to U+25A1.
The glyph named sun is mapped to U+F2F5.
But its name indicates it should be mapped to U+263C.
Adding 169 Glyphs from Octicons Set
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Adding 1 Glyphs from Octicons Set
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Adding 1 Glyphs from Octicons Set
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Adding 139 Glyphs from Octicons Set
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The glyph named ellipsis is mapped to U+EA7C.
But its name indicates it should be mapped to U+2026.
The glyph named bell is mapped to U+EAA2.
But its name indicates it should be mapped to U+2407.
The glyph named check is mapped to U+EAB2.
But its name indicates it should be mapped to U+2713.
The glyph named circle is mapped to U+EABC.
But its name indicates it should be mapped to U+25CB.
The glyph named heart is mapped to U+EB05.
But its name indicates it should be mapped to U+2665.
The glyph named home is mapped to U+EB06.
But its name indicates it should be mapped to U+21B8.
The glyph named question is mapped to U+EB32.
But its name indicates it should be mapped to U+003F.
The glyph named compass is mapped to U+EBD5.
But its name indicates it should be mapped to U+263C.
The glyph named newline is mapped to U+EBEA.
But its name indicates it should be mapped to U+2424.
The glyph named blank is mapped to U+EC03.
But its name indicates it should be mapped to U+2423.
Adding 439 Glyphs from Codicons Set
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Done with Patch Sets, generating font...
DEBUG: Weight approximations: OS2/PS/Name: 400/400/400 (from 400/'Book'/'Regular')
DEBUG: =====> Family (ID 1)      ok       (18 <=31): Mononoki Nerd Font
DEBUG: =====> SubFamily (ID 2)   ok       ( 7 <=31): Regular
DEBUG: =====> Fullname (ID 4)    ok       (26 <=63): Mononoki Nerd Font Regular
DEBUG: =====> PSN (ID 6)         ok       (18 <=63): MononokiNF-Regular
DEBUG: Tweaking 1/1
DEBUG: Changing flags from 0x1F to 0x17
DEBUG: Changing lowestRecPPEM from 8 to 7
   Mononoki Nerd Font Regular
   \===> '/Users/mikeearley/patched_fonts/mononoki-nerd-font-v2/1.0.0/MononokiNerdFont-Regular.ttf'

[Finii]

Well, the glyphs are off-center after patching because this is how the 'normal' Nerd Font works.
Compare #1103 which explains the 3 variants that Nerd Fonts can be generated in.

So centered in the "cell" are only Nerd Font Mono (small icons) or Nerd Font Propo (not monospaced).
You need to give the command line options --mono resp --variable for these.

Regarding the Fontforge messages on generation: All the warnings you get can be safely ignored. There is no uncommon one. Usual usecases are not affected by these font defects.