Yes!
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The pluperfect subjunctive expresses the same time frame as the pluperfect; that is, it expresses a past action that is more past than another past action. The difference is that the pluperfect subjunctive is used in sentences with a main clause that requires the use of the subjunctive mood in the subordinate clause.

I am quite sure that I understood that very well in the distant past, more so than in the recent past, before I came to understand it not at all...

You never change things by fighting the existing reality.
To change something, build a new model that makes the old model obsolete.
R. Buckminster Fuller