Yes, in my opinion, they have a "biological clock" unfortunately, they have several that do different things.
First, the becoming active late is more about avoiding you, even with such nice calm species as the gouldi group. That is, if temps are suitable.
Also, yes, there are many many ways to change them. The first and easist and most fun, is to train them to food. One of their traits is, to appear where and when food occurs. Please consider, at one time, I flew birds(falconry) I learned the value of feeding to accomplish tasks. After I learned how to man and train birds, I tried the same techniques on other animals, like parakeets, raccoons, wild mice, anything I could. At this time, I have "pet" roadrunners and scaly lizards, that feed from my hands, sit in my lap, and in all other ways are totally wild.
Now understand this, the above method is what I call and pull method, that is, its a positive enducement. You could also, turn the lites off at night, and lower the heat, this will force them to only come out in the day, this is a negative inducement, pushed or forced behavior.
Now also understand, the right or wrong is not which method you use or if you use both methods, you should use what works best for you and your monitors.
More about the clock, or better yet, natural rhythms. I feel my biggest problems are indeed fighting those clocks. Ones like seasons. For instance, an ozzie monitors is programed backwards to the north american seasons. They want winter to be summer and summer to be winter. I find, they are sensitive to temps and such, but not wholely, they still are influenced by their natural rhythms. Again for instance, no matter what we do with temps, even keeping them outside, Croc monitors or lace monitors, "Want" to breed in our fall and winter, when its cold.
Normally this is not a problem with small species, that can easily be housed indoors, but larger monitors are a bit of a problem, or at least something you fight on a constant basis. Maybe after lots of generations this will disappear, but that has not happened so far. Thanks for the great questions. FR