think I stumbled onto this as well...I also moved back to the old interface for the draft. At home I normally use Firefox for this game.
However I just logged in from work and used Chrome to login. Still on the old interface, I added about 8 players to my draft board and I shuffled through some of the weights of positions to draft so that when the players I want are gone that it will select from positions of need.
I monkeyed about for a few minutes and noticed that my draft priority list was not in the order that I placed them. I tried to adjust but it would not take (it really wants me to take a punter for some reason). What I mean is the 8 players that I added to the draft board were re-arranged differently than I wanted them and it would not let me re-order them.
I ditched Chrome and logged in on Firefox and the draft board works fine. I fixed my order and it all took just fine.
So it appears to be something specific to Chrome based on my findings.