Even if there were some problems with mail-in voting, it’s certainly possible that the NY Times changed its tune because of the pandemic.
For example, I wouldn’t normally run across a shooting range, between the shooters and the targets. However, if a bear was chasing me and that was the only way to go, I’d probably do that. Given the massive issues with voting during a pandemic (and the inevitable resurgence of COVID) and the tricks that red state governments are doing (removing early voting, removing voting locations and machines), mail-in votes might be the lesser of evils.