This sentiment is destructively untrue.
The TSA is not an evil intelligence seething and building a victim's list to antagonize for all time for its own pleasure.
It is instead a misguided bureaucratic attempt to address (to the public's eye) the problem of airline security. It is an organization consisting of civil servants who are accountable to process and contractors who are accountable to master contracts. What intelligence it has as an organization is clearly --- demonstrably --- top-down and ham-handed.
The TSA is both incapable of storing the names of complainants to enact future revenge fantasies, and also utterly held hostage to its own process and oversight rules. The one, single thing you can do to harm it is apply its own process against it.
Not filing complaints is exactly what the TSA wants you to do. Like every other government bureaucracy, the only stimuli it's prepared to act on are the ones it is pinned out to handle, and one of the very few control pins TSA has for inputs from people who aren't terrorists is "formal complaint".