If two different ROM sets have some common ROM files, but with different names, ClrMAMEPro totally fails to rename them if they have the names switched. Exemplifying:

* ROM Set 1 has a ROM file named "abc.123" (correct name for that set);
* ROM Set 2 (either a clone of ROM Set 1 or an entirely different game) uses exactly the same file "abc.123", but it should be named "rom-1.bin".

When CMP scans ROM Set 1, everything is fine, ROM names are correct, but when it scans ROM Set 2, it finds the file "abc.123", reports it as belonging to ROM Set 1 and, after that, reports missing file "rom-1.bin". It's obvious that the sequence of checking is completely wrong, it should first check if the ROM belongs to the set (by CRC) and, IF IT DOES NOT BELONG TO THE ROM SET, it should check if that ROM file belongs to another ROM set. If it belongs, but the file name is not correct, it should prompt for renaming. If the other ROM set is also missing the file, it should be able to copy the ROM file into it, with its correct name.