2001 Boxster S with a 5-spd?

[seningen]

odd -- check to see if its got a front center radiator. Also check the coolant hose diameters from engine to front of car.
A center radiator can be added -- but few folks would bother swapping to S coolant hoses.

The water/oil intercooler would be different too (top of engine)

Another difference would be a headliner to the convertible top.

No 3.2 (i.e. S) that I know of came with a 5-speed. And the 6 speeds are generally better trannys so
the likelihood of needing a replacement is much lower.