I did a few forum searches and didn't find anything, although it could be my keywords.
 
When recording with the built-in metronome how do you keep the clicks from recording with the track? I do not have the metronome engaged during playback, just recording. It's a fairly faint click, but enough to ruin the track.
 
 

First, the metronome won't be recorded unless:
1: it's leaking from your speakers or headphones into an open mike
2. You have routed it via your interfaces soft mixer back to the track you are recording. 

I'm direct recording so I don't see any way it can bleed in. I haven't rerouted anything at all for this recording. This is an old issue for me though. I've noticed it happening since probably Sonar 8 and with different PC configs.

Hey, Flatty! 
ok... find the metronome buss (on the rt, near/in the same group as the Master buss...) if you don't see it, press H which will bring up a track list you can click to hide/show tracks... make sure it's checked... save.
 
Now look at how the metronome buss is routed... if you can't see (console), go up to the top left (Modules) and make sure in/out is checked... now look at the bottom...the metronome track is probably routed to the Master or some buss going to the Master... change this so the Metronome is going directly to your soundcard, in your case your Presonus firebird thingy...
 
Also make sure some effect like a reverb didn't get put on the Metronome buss/track by mistake... 
 
That should take care of it... 
 
You should make sure your "normal" start setup is this way or you'll have to do it every time... also, any song templates.  If you built them with the wrong routing, they all need to be resaved after fixing them.

I just checked and it was routed to master. Switched it to my presonus and it helped, but a very faint click is still there. This is from a fresh track, straight in and no fx.

Bflat5
 
When recording with the built-in metronome how do you keep the clicks from recording with the track? I do not have the metronome engaged during playback, just recording. It's a fairly faint click, but enough to ruin the track.
 

 
Is it really being recorded? Have you checked that metronome bleed is indeed printed in the wav file (i.e. best checked by just opening the wav file directly with windows media player)
 
If so, this is really strange because a while back I wanted to do that on purpose (i.e. export metronome or a least print a metronome track to wav file) but Sonar applies all sort of measures to prevent this from happening, so you have to do quite a few things to get a metronome onto the wav file ...
 
It would help if you describe what you record using what setup (source, interfcae, routing).

Could be caused by a direct monitor/mix setting with the audio interface

Do your interface outputs connect to anything other than an amp or powered monitors? When you say "direct recording", do you mean electric guitar via D.I. box? I'm not a guitar guy, but I would guess that a sharp transient like a metronome click could get picked and recorded at a low level by sympathetic resonance at high monitoring levels.
 
Otherwise it has to be either the interface mixer is routing output back to input, or the interface has an isolation problem between its analog I/O circuits.
 
 

Here's my setup, nothing fancy. Sonar Platinum, Presonus Firebox and a guitar or bass straight into the Presonus. The Sonar metronome is all default settings. The Metronome out was set to Master, but I changed it to the presonus and ended up with the same results.
 
I have the metronome set to off during playback. Here's a very short clip of it. This is just the ending fade out and the clicks are there.
 
http://www.metalbrigade.com/files/sample.wav
 
I'm using headphones, no external monitors or anything, so there's really no way for any mics to pick up the sound.
 

I don't set my metronome to a bus at all, I just set the out of the metronome to the 1/2 out on my Octa- Capture and I never hear it again in my recordings.  I don't record with my Speakers turned up either.
 
Another way it so set the Metronome is to the 3/4 out on your sound card and have the 3/4 out going to a head phone amp.  Now you can just listen to the metronome only through the headphones.  But leave the bus our of it, Just route it directly to an audio out only.  You can find very inexpensive head phone amps.
 
Oh 1 more thing, I set the metronome to only count in on 4 beats but I don't check off record or play,  I just need it to count me in.  I don't use it to keep time, that's what the drum track is for. 
 
I use the metronome to record drum track, then the drum track keeps my time after that.
 
I hope this helps.