Impaired installation

[split63]

I was using Zen 1.3.9h with an old version of Super Orders. I upgraded Zen to 1.5.4. (A fresh install which imported the old database) I installed a template into 1.5.4 and then installed SO 4.0.10.
The installation reported successful in admin, but there is little signs that it exists. Under Batch Form print, I see a "Batch Status Update" and "Super Orders" button, and there is a Super Orders menu item under Admin-->Configuration. Other than that, it does not seem to be running.

I copied the files again, still no change. Not sure where to look next.
I did have the Website Maintenance set to "Down for Maintenance".....would that impair the install?

***************** UPDATE *********************
I copied each file, one by one to the server, and that did it.....its working now
Somehow dragging and dropping whole folders was not working.