Doing 5/3/1 doesn't mean the same thing for everyone, and there are ways to mess it up. Also, if the other three lifts are progressing, then ride that wave. All four lifts will not progress at once. Some may even suffer for a couple of cycles. Keep at it.
What was your training week like before?
What is your training week like now?
Let us know the answers to those questions, and I bet the answer will be clear.