This will end up sounding like one of those friend of a friend stories
My first aikido instructors father was a karate instructor. One of his higher ranking students (yondan I believe, but don't quote me)was relocated to Germany because of work. When he got to Germany he went to a dojo that did the same style of karate that he held rank in. He said he didn't feel welcome and that he just didn't like the "feel" of the place. He ended up wandering into an iaido dojo, was made to feel very welcome and really liked the people there. By the time he left Germany he was a nidan in iaido.
I would agree with Brian. All else being close to equal (dues, schedule, etc), if one dojo has an atmosphere that better suits you I personally would go with that one.
But that's just me,