I put a 2.7 engine from a manual into my 2.7 Tip. Some of the differences that you will have to deal with:
Engine harnesses are different - the Tiptronic transmission harness is bundled with the engine harness.
Cooling lines - the Tiptronic has 2 extra junctions that facilitate transmission cooling.
Vacuum hoses - I remember there was a 4 way split in a line on the Tip that was a 3 way split on the manual.
Mounts, linkages, shifter, DME, etc.
A couple years ago I converted an auto Honda Del Sol to a manual. Different car I know, but the most painful/difficult part was swapping out the pedals due to the small space to work in. All of the studs and holes to mount everything were there. Hopefully its the same with the Boxster.
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