I've used a lot of Universal. I switched to it from Unique precisely because it meters better. I don't know what's going on in your case but to my knowledge Universal does not have a reputation for being hard to meter. At the moment I use a Lee Auto Disk but in the past have also used Universal in a Lil' Dandy and Dillon measures. Never had an issue.
Curious. I assume you went back and tried a different powder to be sure it worked fine? Don't know what to tell you.