1) It may take a few weeks to fully resolve. The tissue will clear up on its own cause the blood flows in there with your white blood cells to clean the area up. So whether or not the tooth is open or not isn't as relevant at this point.
2) Sometimes pain can jump or move around, in your case, it is called referred pain. The area is still infected so it may some more time to improve.
I'm having a root canal re-do on my bottom right molar, the last one on my left, he started and used this solution that desolves the old root canal I think it called solium?? Anyways he's on stage three, Stage one and two were done two days ago and I went yesterday to get stage three done, but I'm in a lot of pain, so he didn't do anything, he opened it to take dome of the pressure of and Tolkien me to rinse with salt water by the hour and come back in the morning to complete it. Well it's 1:30am it it really hurts so I took a couple of extra strength anvil along with a oxydodoneb pill as it's really hurting, he said he did have to go really deep, to the tips of the threet roots, is this awefull consistence pain I'm having normal??
I think he was using chloroform? I'm not sure what the stages are but I'm assuming he opened it up (stage 1) and cleaned them out (stage 2). I'm guess he'll have to shape the canals as a stage 3.
You may want to contact your dentist cause he may need to go back in to clean it out some more or figure out why you're still hurting. I wouldn't say its normal but it does happen on rare occasions where after the initial treatment, the pain is still present or worsens.