I have owned both (currently have a G/S, but ran a R100GS for 6 years). Yes, they do have their diffenent traits, but I agree with Grant; If I was trying to decide on one or the other for an around the world trip, I would look for a R100. Having said that, I wouldn't turn down a good R80G/S if I found one that had the right modifications done, or was closer to what I needed. There is better aftermarket support for the R100GS - most of the issues have fixes that are still being sold. Putting an R100 (or other brand) fork on an R80G/S certainly deals with a lot of the problems that bike has, but it adds weight (one of the reasons the R100 is heavier!). I find the 800cc motor smoother, but I miss the power of the 1000.
Also, there were more R100's made, and they were made more recently so finding one in good shape should be easier. G/S's have become somewhat of a collectors item, which has raised their perceived value beyond their utility for overland trips. I would also be considering an F650 GS/ Dakar as well. Used prices for these are gettin close to that of good R100's and they offer similar power/ capacity/ utility in a more fuel efficient package.
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