Rehabbed my knee for about 4 months and started lifting heavy again a few months back on a 4 day split and am almost back to where I was pre-knee rehab. Knee feels as good as it has in years but still a little nagging pain from time to time but nothing that isn't manageable.
Starting Wendlers 5/3/1 program today (also ran it for a few months before rehabbing). Starting a little lighter than probably what my true 1RM would be per Wendler's suggestion in the book.
Here is how my first cycle looks for the 5/3/1 portion:
Week 1: 85x5, 95x5, 110x5+
Week 2: 90x3, 105x3, 115x3+
Week 3: 95x5, 110x3, 125x1+
Week 4: deload - will probably only deload every other cycle.