This is another instance of that IJN doctrine in action which favors accomplishment of narrowly defined mission and preservation of own force over exploiting opportunities that presents for the complete destruction of enemy forces.
There were at least 4 instances during the war when IJN forces found themselves with American forces before them on the run, and their own forces in position to significantly effect the course of the war for the better from the Japanese point of view, but chose to back down in face of relatively low probability of being overmatched by as yet unseen american forces potentially beyond the horizon instead of pressing their advantage in order to benefit from the greater possibility of collecting the fruit of their situation.
It appears while IJN forces was capable of suicidal determination, but only when specifically instructed to attack suicidally. Otherwise the default mode of operation was err on the side of self preservation and risk avoidance. Yamamoto was one of the few senior Japanese naval commanders who appeared to be empirical odds calculators who disdained suicidal operations for its own sake, but favored much greater risk taking in normal operations. His chief of staff Ugaki, on the other hand, was a fanatic and an main proponent of suicide attacks, and favored the spiritual and subjective over empirical calculation of odds and chances. Ugaki believed any material odds can be overcome if one is sufficiently suicidal in pursuit of one's goal, therefore failure is always one's own fault as it must result from lack of adequate zeal.
I don't think it is as much of a doctrinal issue, but more of an unwillingness to take risks. I believe it is a side effect of; being educated so thoroughly of America's numerical superiority that Japanese commanders were unwilling to take risks - as they needed to preserve strength for the final Mahanism clash. Men they can lose and replace, but material - especially ships and planes - they cannot.
But of course, in war or any competition, if you stop taking risk, then you cannot win; especially in a poker game and not a chess game.