I was using an old version of megaBLAST (circled in red). I am using the USDA SciNet Galaxy, and this is an option still.
I don’t see it on the usegalaxy.org (non-USDA SciNet) page. I guess they need to deprecate/retire/take down that option. But I still don’t know why it wouldn’t work correctly. Maybe something associated with that tool needs updating or whatever.
At any rate, thank you for taking time out for this.
V