Hi @kjwx109prime,
Not directly related to your specific situation, but yes, DoE can handle factors that can not be varied independently.
These factors can be handled in the design as covariates, factors that you cannot directly control, but that you can measure and know in advance of the experiments (not measured during the experiments).
There are several discussions about the use of covariates in DoE in the Community where you could find informations :
Define a covariate
DOE custom design with covariates
How to use covariate factors for space filling design?
Covariate as a designing factors
effect of parameter not being part of design, how to evaluate, treat it as covariate or something el...
[...]
And a tutorial and presentation about how to use them :
I hope this answer will help you,
Victor GUILLER
L'Oréal Data & Analytics
"It is not unusual for a well-designed experiment to analyze itself" (Box, Hunter and Hunter)