I'm running 4.0c Beta 1 and it seems that my passage guides are not being saved. For example, I had a passage guide that I had run in 4.0b for 1 Thessalonians 2:13-16 and starred one of my commentaries. The stars remained in 4.0b.
After installing 4.0cB1 it seems that my passage guides are no longer being saved. In this latest beta I was using the same passage guide (my MacArthur Study Bible was still starred) and I starred a few more commentaries as particularly useful. Upon saving my layout, closing it & reopening it, it had reverted back to the previous state with only my MacArthur Study Bible starred.
I even tried deleting the saved passage guide & started the same passage with a fresh run, but that didn't seem to work either. Now it just runs the passage guide all over again without even saving it.