If you start from a fresh install and just do my mod (no code changes, other mods, or alterations), does it still not seem to be installing the mod incorrectly? If that works, I can look at the items and changes that you've made and see what I can do to fix the compatibility with them.
If it still doesn't, there may be something weird going on in the mod installer. It seems to be applying the mod correctly for me and others I've checked with, but it's Strive modding. Doesn't always play by logical rules. However, I got permission from Ank to include his bugfixes in my mod and I believe he's fixed some quirks in the mod loader, so that may resolve this if its a mod loader quirk.