It looks o.k. in the preview, but the raft is being printed first and then it attempts to print the first layer of the piece without raft. (you can clearly see that with one piece having a 30+ layer raft, the other none and you do the layer slider preview). This will cause either the second print head to bump into the printed raft in case the z-axis is being moved up again, or the piece will be printed in mid-air (which causes a mess as well).
S3D needs to consider the raft base being "layer 1", not the first layer of the part, and right now it does not.
Of course the two are dealt wit separately.....but interleaved by distance from the bed...not the layer number of the actual part!
What you are seeing is exactly as advised.....you have placed the two parts too close to each other on the bed.....and the volumes bounding areas are overlapping.....causing whet you are seeing. Move them away from each other....and reslice!