I would say "What he had written IS true" is theoretically possible, but no one is likely to say it in reality.
For that, "What he wrote is true" is shorter, clearer, and more natural - you don't need the perfect tense.
If you google "What he wrote is true" (with quotes), you get about 91,000 hits.
If you do "What he had written is true", you get a single hit, and even that one is irrelevant, saying altogether different thing with a comma after "written".
Just remember that the tenses are not maths.
People tend to use the simplest tense that can express the intent clearly.