Already reported and fixed : https://www.lemmingsforums.net/index.php?topic=5607
But the bug happened to me again in RC3.
I attached the problematic level.
The level gives you 10 of every original 8 skills when you play it.
But if you open the level with Editor 1.38, all the skills are reset to zero.
Commit 015cfef should have this properly fixed now.