i think so - it was done with the supercharger kits where they needed the clearance. as you state, you will need different mid-pipes as the header lengths are different. also check the IDs of your primary and secondary pipes to make sure they are not smaller for the 2.5 cars - i'd looked into this previously and i think they are.
also, if you are looking to replace your current exhaust w something oem, look at the 987 stuff - available cheap (folks pull it off to put on aftermarket - ask at planet-9 which is the go-to 987 forum) flows MUCH better than 986 stuff, sounds better, and bolts right up.
of course, if you put on catless headers, you are going to have to lengthen the wires on your post-cat o2 sensors to extend them to mount after the secondary cats. which means adding bungs as well. or find some other work-around for the emissions cel (lots of threads on that here).
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