This is a tricky questions.
Source Equipment Verification only requires that the source equipment be verified for proper function. Which would not specifically include the design requirements listed elsewhere in the code book.
With that being said, since you know of the potential damage that could be done in an oil lubricated vacuum pump that will be receiving oxidizers, it would be in the facilities best interest to require that the equipment manufacturer list that the vacuum pump is compatible for this use. The requirement for and oxygen and nitrous oxide monitor would only be needed if the manufacturer states that their system is not compatible for systems that will include the presence of oxidizers.
We typically include notes requesting that the facility receive confirmation from the equipment manufacturer regarding their compatibility with oxidizers. With additional notes regarding the code remedy for non-compatible oil lubricated systems requiring monitoring for oxygen and nitrous oxide to ensure that these levels are below 23.6 percent.
As verifiers we are required to follow the testing listed in 5.1.12, but we also have very specific knowledge of system design requirements, and the potential damage that can occur in improper design and installed systems.