Checking pre is fine especially if you aren't hugely comfortable playing pots out of position yet. Post flop is where all the magic happens anyway.
I don't like the c/r for a few reasons, in a limped pot on a draw heavy board it's very likely a decent 2pr hand is going to lash back and re-raise (like what happened) giving you worse odds
on your hand. You don't always have to bet big draws like they're the nuts, it's more important to get maximum value. A common mistake is to see you have an 11 out draw and ignore the action because your default monster draw instinct is to get it all in. While it's true that most of the time you're getting 50/50 v's the range and make profit through fold equity...there will be some scenarios where you make more money playing it a different way. For example this one where you have no fold equity.
Checking does nothing for building the pot up to get stacks in by the river. I prefer donking the flop for a pot size bet as there's a small chance your king high can take the free monies right there and if you get action then you will very likely get continued action from Ax/Baby flushes/str8's with no extra outs/2pr/set hands on later streets. If you're raised then you can call the raise in such a powerful position. If the off suit queen comes then villain is NEVER putting you on KJ and you will definately be getting stacks in on the turn. Implied odds for that particular out is huge. Then even if you hit your flush and villain thinks you have the flush he will still give you action from 2pr+. You potted the flop so there will be a nagging doubt in his head that you actually have the flush and that a bet on the turn is designed to scare him away. You will once again get at least one street of value. There's a 23% chance you hit one of your clean 11 outs and a 99% chance you'll get considerable action while you have the immortal nuts. Sometimes coin flipping big draws isn't best.
As you move up to higher stakes then bet/3bet or c/r becomes a more viable option because then you will get value from your sets/2prs when you take the same line in future hands but at micro stakes pretty much your entire decision making process should be dominated by the current hand.
In this spot you're 50/50 at best with no fold equity so blindly saying to yourself, "**** it i'll take the coin flip" isn't an optimal thought process.