We were able to get it to work by doing the following:
We used a root file (If you use AWS, sometimes you have to combine the root with the specific db region) placed in a specific directory.
We made a directory off of the SQLYOG install location and loaded the certs from there. ** We tried other locations and still experienced the issue you mentioned. ** We added a specific Cipher of (This may be different for you depending on your db source) DHE-RSA-AES256-SHA