The Router Interface Down and Trunk Port Down issues exist. However, most networks don't take the time to understand whether all the interface that are in up/down state should really be in that state. So how about an interface down report that is based on the state of the interface over the last N days (default N=7?).
If the interface (or Trunk port) has been up anytime in the last N days and it is down today, then it appears in the report. Some sites might like to go back 30 days instead of 7 days, thus making N a variable with a default setting.
I don't think this is possible using the existing report engine. If it is, I'd like to see an example.