So I went through UWorld pretty early on, having covered only 1/2 the stuff in class. I wrote A TON of stuff in FA 2012. Then, I had to get the shiny new FA 2013 and the plan was to transfer all my notes, thereby forcing me to go through FA once. However, going through it after actually learning the stuff in class, I realized a lot of the stuff that I wrote down was actually pretty obvious and I ended up not even looking at my old notes.
I would say that typing notes is much more efficient because it's easily searchable. Also, keep your notes as brief as possible. I made a 2 column table as I went through QBanks which I found very helpful. 1 column would be the Dz (etc) and 1 column would be "trigger words" or BRIEF vignettes or just random facts that I didn't (e.g. my shorthand for Fever, Nausea, Vomitting, Headache = F/N/V/HA).