No! It install JFK in the folder PROGRAM (x86), that is 32 bit, while Loooched Martin is localized in the folder PROGRAM 64 bit.
First, you are NOT supposed to install "into" the folder of the sim: since the installer allows you to install into a separate location for all FSDT products, it's best you take the chance (which means, accept the default, which is obviously the most sensible choice), so you won't touch the sim folder and will have all the FSDT files separated from it, which will be very helpful in case you will want to reinstall the sim from scratch.
And, the "PROGRAM (x86)" and "Program Files" folders are JUST naming conventions: it's possible to have 32 bit and 64 bit files in either folder, it won't change anything in regard how they work, because what allows Windows to identify a 32 bit from a 64 program, is the format of the .EXE/.DLL file, surely not the name of the folder it was placed into! Since the ONLY file we need to sort out the difference between 64 and 32 bit, is the Addon Manager .dll (bglmanx.dll or bglmanx64.dll), it would have been silly and a waste of space, to install 2 identical copies (except for that .DLL) into 2 folders so, they are together and, of course, the 32 bit sims are configured to start bglmanx.dll, while the 64 bit sim is configured to start bglmax64.dll.
So, basically, don't assume the installer is wrong, because it obviously isn't and, if you accept all the defaults, they are the most sensible choice to install into. The only real reason you might have to not accept the suggested installation folder, is if you don't have enough space on C:
