Issue might be located in your options_lookup.tsv file. If you are specifying a certain parameter and option in Apply Upgrade, there needs to be a corresponding row entry in options_lookup.tsv that matches what you put in Apply Upgrade exactly, word for word including cases.

See https://resstock.readthedocs.io/en/v2.2.4/advanced_tutorial/options_lookup.html for examples of troubleshooting.