True enough, NYT does have some articles that aren't factual. Yet, the majority of their articles are factual. According to adfontesmedia.com, a website designed to rate news sources for their biases and credibility on a rigorous metric, it will show that NYT has a reliability rating of ~47. With AP (Associated Press) and Rueters being rated the highest for facts and least bias of a score of ~49.
That being said, the majority of NYT articles fall well within the category of "Most reliable" news source. The lowest factual rating of the NYT is this story with a rating of ~22 sharing the 20 bracket with only one other story:
https://www.nytimes.com/2019/02/26/opinion/title-x-rule.html?action=click&module=Opinion&pgtype=Homepage
I commend you for doing your homework and checking out their background though. That being said, your statement was a statement of absolution stating they *did not* have credible things, which is false. A correction would be *they had some questionable news stories.
At this website, you can see which stories are false, who writes the stories and recognize patterns by authors and view individual stories by various publishers.
For the most part, NYT is legitimate.
Fox News for example, has a reliability rating of ~22. Their stories are all over the spectrum ranging from reliable with no bias, to not reliable at all with extreme bias. The lowest reported factual news story is an op-ed piece by Kayleigh McEnany with a factual rating of 15 sharing the 10 and 20 bracket with a few dozen other stories: https://www.foxnews.com/opinion/kayleigh-mcenany-ig-report-shows-these-findings
Having said all that, Trump is welcome to show his taxes and prove the NYT wrong. Except, he hasn't. He isn't. He won't. Because he knows it is true and has even admitted to some of the claims by NYT.