I have several MS installs with Pro Sites, all version 3.3.1 on an Nginx server.
On install #1, I am using a custom DB prefix and Hyper DB. On install #2, I am using the standard DB prefix and no Hyper DB. I have tested both with only 2 network activated plugins: Pro Sites and WordPress MU Domain Mapping.
On install #2, the "search sites" function (either on Sites or Pro Sites->Manage SItes) works fine. On install #1, neither works. (Since some threads here don't acknowledge this, since WP 3.1, search in network admin requires explicit use of wildcards, as in entering abc* to find a site that starts with abc; you can't just enter abc without the asterix.)
I can't find any differences between these 2 installs except that 1 uses a custom prefix and Hyper DB (and site search doesn't work), while another works fine. So, my questions are:
a) does Pro Sites impact site search?
b) would the custom prefix or Hyper DB break site search?
c) If I deactivate Pro Sites to test, and then reactivate, will my sites be impacted or will all of their Pro Sites settings (plugins, themes, etc) come back?
d) if not Pro Sites, any suggestions on how I can debug this?
Thanks in advance.