Any idea what I can do to stop this from happening? The pools seem to be up just fine.

Any chance you can run a packet sniffer and see whats going on between the pool and miner?
Have a good recommendation for one that will run on windows?
Stepped back to 4.5.0 and it has no problems at all.
Try disabling the Coinbase check by appending /#skipcbcheck to the pool URL.
Add /#skipcbcheck at the end of the pool URL's like this?
stratum+tcp://us-east.multipool.us:8888/#skipcbcheck