We are not able to locate the flow/flush rates of the plumbing fixtures in the project building, so we have decided to test 20% of the fixtures of each fixture type. How do we go about doing that?

There is no official protocol for testing fixtures, but it can be done in the following ways. For a lavatory and kitchen sink faucets and showers, simply fill a bucket for 60 seconds. For wall-mounted urinals and water closets, ask the building engineer to assist you in disconnecting the plumbing from the flushometer and measure a flush of water into a bucket. It is recommended that each fixture be tested at least three times, to get a weighted average flow/flush rate. This is quite a process, so consider it a last resort if the fixture documentation can absolutely not be found.

If manufacturer documentation is unavailable and the flow/fixture rate is unknown, how would one go about confirming the flow/flush rates of those fixtures?

You can try to find the manufacturer and model stamped on the fixture itself. Sometimes the fixture stamps are hard to find, are not legible, or even are not there. The other option is to physically measure and time water consumption rates for at least a 20% of the fixtures of each fixture type in the project building that differs from UPC/IPC requirements.

Do spaces which are not regularly occupied require increased ventilation?

Based on the definition provided for occupiable spaces and breathing zone in ASHRAE 62.1 Section 3, electrical rooms, telecommunication/data rooms, elevator equipment rooms, storage rooms and similar spaces would not require the per square foot ventilation indicated in Table 6-1 to be delivered to the space since they are unoccupied the majority of the time.