“One time” belongs to the larger phrase “coming through one time” and “pardon me” belongs to the larger phrase “will it pardon me”. If you break that sentence up this way it will make it easier for you to understand.

"Coming through" or "pulling through", means "to still be alive, working or making progress after a difficult or dangerous experience". (see link-definition 1). In this context I believe it means to overcoming your circumstances by changing for the better.

And “one time” is a term often used in hip hop to describe police (see link), but I don’t think that’s what’s being described here. In this context I believe it means “in this one instance” or “if only this once”.

To pardon is to absolve, meaning setting free from blame, guilt or responsibility.

So “Will coming through one time pardon me?” would mean "Would acting better in this instance absolve me of my blame/guilt?