Hi Perrine,
Unless you know what model is going to be selected, I would use ctmm.select() rather than ctmm.fit(). There are a lot of options to run multiple individuals at once. You can do this in a for() loop, parallelized foreach() loop, or in parallelized ctmmweb commands. Semantically, ctmm.fit() and ctmm.select() don't take multiple individuals, because eventually that operation will eventually be used for population model fitting.
If you get a bimodal distribution, then that could be switching between two different nests. It could also be a nest area and a very localized foraging area that isn't adjacent to the nest.
I haven't built in direct map support into ctmm yet, but it is in ctmmweb.
Best,
Chris