As long as MAME can find all required files, it doesn't care if it's merged, split, or w/e else might be out there.
The key is simply having the locations correct in the rompath of your mame.ini separated by semicolons
Code:
rompath "J:\MAME ROMs (T7Z-Merged);J:\MAME CHDs;J:\MAME Software List ROMs (T7Z-Merged);L:\MAME SOFTWARE LIST CHDs"
I've never used AM so I can't comment on that one. GameEX, QMC2, and others won't care what your ROMs are as long as MAME finds what it needs and successfully launches the set you pick in the front end.
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