You can move user patches into one of the other folders by changing the letter in the square brackets in the name column. Make sure to save a copy of your file before you edit it!
For example:
[U] BigRoomMono (1)
If you change the U to a H it will show up in the Hall menu not the User menu.
[H] Hall
[R] Room
[P] Plate
[E] Early
[S] Special
[U] User
Doesn't seem to matter if the impulse is in the usersIRs.rir or the IRLibraries\FACTORY.rir.
Now if you could just make new menus...
I used SqliteBrowser to edit the 2 rir files. Don't change the hash, num_samples or waves columns.
You can probably re-order the list by changing the id_irwave column. Haven't actually tried but it seems to be the sort order.