What are you looking to get out of a program? Typically conditioning just refers to cardio geared towards increasing strength; ie making sure your lungs aren't the limiting factor in amrap sets. It can also just refer to cardio in general or GPP- general physical preparedness. Big burly he men can't call their treadmill time cardio!!!!! I would think your 5k training world cover both of these.

If you have access to kettlebells or a few different weights of dumbbells, i could probably share with you the program I was doing in January - the Garage Built Body. I got it while it was on sale but I don't think I'd be ready to pay 40$ for it which is the cost of the program right now. So I can share. It's not like I haven't posted every single workout on the daily check-in tread anyway

There's http://crossfitfootball.com/ that has some kind of powerlifting program + WODs which make it pretty effective at conditioning. Although their website confuses me so I never looked into it that far.

There's a 5/3/1 for football somewhere out there that might be interesting. Any program that focuses on sports would be good for general conditioning, IMO

If you're looking for something free there are indeed a lot of options, but they pretty much all boil down to a similar thing: strength training paired with high intensity circuits. Thinking here anything about obstacle races could work (although those tend to be a LOT of running and then mostly bodyweight). Maybe this one? http://breakingmuscle.com/strength-conditioning/6-week-training-plan-for-your-obstacle-course-tough-mudder-spartan-race

But you could also just do 5/3/1 and add a crossfit WOD at the end and get similar results, I think.

If you wanna work on running but not make it 100% your main focus, do a 2 or 3 day full-body and run on off days. Focus on single limb moves (DB or KB) to develop coordination and core stability to get you more mobile. Include POWER moves in your routine (cleans, squat jumps, DB snatches). Do some AMRAPS, EMOMs or intervals on time instead of rep ranges. It really doesn't have to be super complicated?

Hope that helps and does not confuse you any further, lol. I know I'll never let strength take a backseat to running even if my plan is to run several obstacle races this summer. It's all about balance, right?

If you're just looking to maintain your strength you could do SL 3x5 or even 1x5 twice a week alternating A and B. Or you could do the "Jack *kitten*" 531 template with squat+bench one day and DL+OHP another day. If you plan on competing in obstacle races I would add a lot of upper body pulling as accessories- pull/chin ups/all the rows, maybe some farmers walks if you have weak grip. I've never competed in an obstacle race, but I do watch a lot of ninja warrior, and it seems all about upper body pulling.