First of all, I've documented a LOT of issues with EZ Scan. Secondly, I know the software has had lots of updates since
my review, but there are a lot of basic functions (at least from my point of view) that are lacking. Some I believe are ties to limitations of the scanners (TRX-1 & TRX-2) themselves (or firmware running those radios).
I created a very large profile in Excel. One tab for conventional channels, one tab for each trunked system's sites, and one for each trunked system's talkgroups. The first line of each tab contains "keys" that match what EZ Scan wants to determine what the data in the column is. I always "copy" a tab to the clipboard and then "import" into EZ Scan (each thing has different ways of getting imported). The conventional channels remain in the order they were imported, and cannot be edited for the radio (changing the order on the screen doesn't count); and the TGs are sorted by their IDs.
If TG IDs are deemed invalid, they won't import. So you really must setup a system, select the correct trunk system type (MOT, P25, etc) BEFORE you import TGs. If anything goes wrong, unless you've clearly got it working; I'd delete that system and create a new one. Also, I would not mix stuff from RR with stuff you create (there's a sensitivity to that).