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Normally its just one object which causes problems, so a Merge one object at a time can pinpoint the troublemaker.
I tend to keep a rolling record of my last 5 saves (so have scene1, scene2, scene3 etc and save over the oldest when I save my project).
I find Gmax very occasionally (about 1 in 100 saves) spits out a corrupt file, and I've lost an entire months work before, by overwriting my active project with a corrupt copy.