"Trying to read from invalid SYSCONF"

[OutCryo]

Story: Everything was working fine. I'm currently just playing Gamecube games on it. I played NBA Street v3, created a save. I then turned it off and setup a Retrolink Gamecube controller through the Dolphin UI for the first time. I then tried to play some games but started having issues.

Issue on version 5.0: When I boot Dolphin I get a popup that says "Trying to read from invalid SYSCONF". Another windows says "Unknown entry point @711b!". I get the the sysconfig popup whenever I try clicking on the controller menu of the Dolphin UI as well.

Issue on v5.0 and latest development build: Games boot up very slow at 1-5 frames per second, audio skips, and then Dolphin eventually becomes unresponsive.

Troubleshooting so far: Restarted my computer.

computer specs:
Windows 10 Home
Intel i7-6700K 4GHz
NVIDIA GTX 970
16 GB RAM

[Craftyawesome]

Create a portable.txt file in the same location as dolphin.exe. Does the issue still happen?
Also sysconf handling was improved after 5.0 stable, so running a sysconf from newer dolphin or a real wii might not work.