Sounds nasty, you might consider installing one of the recent builds instead of the RC2?
Another option is to go into the pcb-kicad file and delete the zone information if this is causing trouble for your system and see if the file behaves after that?
But you can still open it?
I'd copy the whole project folder for backup.
Then I'd open the project, the pcb and delete the zones and start fresh over with them..
But it's hard to judge/advise if one can't see the nitty-gritty details of this.
One question - looking at the screenshot from the OP again - there are no tracks in that picture?
Why is that? I can still see the ratsnest.
Did you start with the zones? after placing/arranging the footprints?
I usually do the arrangement, then the tracks and shuffle/re-arrange/delete tracks/lay down new tracks a lot before I can consider any zones/copper planes (except maybe for the GND plane). Anyhow, zones usually come last, not first.