How much do you weigh? Those weights are pretty high for a program like SS (impressive stuff, btw). If you have a history of training you might be better served by switching to an intermediate program like 5/3/1, Texas Method etc sooner rather than later. Especially when working long hours and without a short commute something like Texas Method may be very suitable, as each day is shorter and more focussed, with a mid-week recovery day that makes training feel like a vacation. Don't take this as a confident diagnosis, but foot pain upon waking like you described is commonly a cumulative thing from overuse/excessive volume. It's a good idea to do mobility work/foam rolling if you don't already.
Thanks a lot for the input.
I weigh right around 200-205. I've been in the gym a lot the past couple of years at college but had never really gotten into a serious routine so I figured that I would start with SS, make sure I had actually good form, and see how long I could see strength gains on that program.
Depending on how the next work out goes for squats and if I end up failing on any other lifts in the next week or two I might consider going on to 5/3/1 or something like that. But I was hoping to keep on SS for another month or so at least.
Also, I've been working in chin ups for a few weeks now and while I have seen an increase of 1 or 2 for the number I can do for the first set, my numbers still routinely drop from 7/8 on the first set to like 5 and then 3 for the last two. Should I be resting more between sets so that I can get the same number all three sets like all the other lifts? Also, I'm still dead lifting pretty much every day, could that be having a negative effect on my chin up numbers?