Purchasing Trainz Plus will not give you all the extras for your TRS22 install. You need to install Trainz Plus from your MyTrainz account at the top of this page. You will then need to copy your 22 build folder and paste it somewhere, and then direct Plus to that folder.
It would seem that the session has come from a save while in driver mode or exiting from driver mode. This would include a save while using UDS. You can start a new session and copy all the different setup rules to the new session...
Check in your backup folder and open the last backed-up copy of the route. Copy the missing file from the route folder and paste it into the working CM routes folder.
If trains are in the wrong position, then a save while in or exiting driver mode has taken place. Reset all trains and reset the rules, and then save as a new session. This should erase the session memory of where those misplaced locos were. Keep a base session that has everything in its start...
I have EIT's in a layer on the route layer, as it is part of the workings for running trains on the track and should not be any different for new sessions. You can always drag the EIT layer to the session layer if you want to.
When you first add locos to a new session, Trainz will add drivers automatically. Once saved it does not add drivers to the other locos unless you have the add drivers to empty trains ticked.
https://online.ts2009.com/mediaWiki/index.php/How_to_Use_Driver_Setup_Rule
This is the image I get from the CDP you sent me. I don't see any black or water. This screenshot was taken from TRS Plus 126280 version.
Plus I can't match or find any of your other images
That's how it should be. Setting more than one path stops other trains from using those paths. There are driver commands that can set paths instead of letting the tower detect the train. You could apply them to an express train, which would give it a faster through track path by restricting...