Is there a way (or some kind of trick with mods) to use BostonWorcester version of F40PH-3C to create a formation on formation designer? the only one that appears is the BostonProvidence version
The formation designer subforum will be the best one. I don't know the answer, but hopefully someone can help you - though it may take more than the 38 minutes since you posted in that other subforum.
I think I made it appear in formation designer as part of MJKCP_TransitionMod_F40PH-3C.pak, although I can't remember if formation designer will let you add anything else to the formation. If it works, you can delete the mod after you create the formation and it should still appear If it won't let you add anything else to the formation, you can use this, although you won't be able to get rid of the BTC-3 coach The other option is to make a formation using the BostonProvidence version, then open UGCFormations_0.sav (it should be somewhere like Documents\My Games\TrainSimWorld5\Saved\SaveGames) and replace every instance of BPE_MBTA_F40PH-3C with BOW_MBTA_F40PH-3C (I would make a backup of UGCFormations_0.sav first though just in case)