Yes.
And the anomaly is not created because the ”he is the sum of the remainder from choice”, morgan01. The Architect explains it in Reloaded as “the sum of a remainder of an unbalanced equation inherent in the programming of the matrix.”
Because you cannot at the SAME time give people a choice (needed to make the Matrix work, even if the choice is only at a near unconscious level), and NOT give them a choice (humans are slaves).
The anomaly is not a “he”, it is an “it”, which NEO assimilates, thereby becoming The One.
The Architect:” she stumbled upon a solution whereby nearly 99 percent of all test subjects accepted the program as long as they were given a choice, even if they were only aware of the choice at a near unconscious level. While this answered functioned it was obviously fundamentally flawed thus creating the otherwise contradictory systemic anomaly.”
So it is the 1 % who did NOT accept the program (the fundamental flaw), that creates the anomaly.