Thanks for the feedback. After designing this I decided to make any future through hole boards also surface mount compatible. It just makes sense to do if there is room and helps the design have a longer lifespan.
I personally prefer assembling boards where all the passives are surface mount. It seems to go a lot faster for me and there is a lot less waste. Although I haven't gone smaller than 0805 yet for manual assembly.
I'm also hoping to do some more 3.3V stuff in the future... maybe a 3.3V (or less) adapter shield or something.