MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.
I don't recall the exact dimensions of all of the parts, but the sectioned parts should work for you, right?
There are versions of all of the larger parts (still full-scale), but cut into 2-3 sections.
I have a 250x210x210 (ish) print bed. I was able to easily fit each component on there. I feel that with the split models, you should be able to fit stuff on your bed. If you've already tried this, which part(s) are you running into issues with?