I have been gathering information as new threads come in.
Seems the issues with reaching the tame limit even though you are well below the tame limit is due to unclaimed dinos in or around Coordinates 50,50. This is due to eggs getting teleported to that location when dinos are laying them. Its causing mass unclaimed dinos to continue breeding and laying eggs.
This is being looked at and investigated for what the cause of it is.
Some ways others have fixed it is by raising the maturity rate so dinos take longer to grow. This is causing them to die off before them are able to fully grow.
Some have stopped breeding all together until the issue is fixed.
You can also turn make the egg hatching take longer so you are able to get to 50,50 and recover the egg or eggs before they hatch.
If you get to the area and there are more unclaimed dinos than you can handle you should be able to admin kill them using AdminCheat GCM this will give you creative mode and allow you to use the rifle to destroy them all.
If anyone has other methods that have worked please feel free to add to the thread.