I'm using RC6 so no idea if the following is fixed already, but I found nothing on the forum and bugtracker.
mission spedition (map spedition06)
While walking up the stairs to the roof my trooper fell through the last tile and was trapped under the stairs.
mission falconcrash (map falcon_crash04)
Trooper got trapped on the debris. Also my men got shot down in the transport through the apparently thin walls. Don't know if this is a general problem.
I tried to run specific missions with the mission command, but then I have no troops in the field. Is there a way to trigger missions on the geoscape?