Okay so that looks good then for the timing.
In terms of smart searches referencing the same object, i mean if you have 2 smart searches on the same site, that both will hit a single document (example, you have a full-site scan, and another that scans a sub-section, they will both be triggered when a document in the subsection is changed). We have run into lock ups because of that situation in the past.
Anything in the Kentico Event log? Post it here and i'll try to help decipher it.