Deviation from standards is what I find to cause a lot (the most?) of problems. Complexity generally makes things more error-prone, but it tends to become less of a problem when in a well maintained system a lot of people use (someone, maybe yourself, has already had and solved a problem you're having).

If your standard is dealing with systemd units, it may make sense to make your containers conform to that (thereby deviating from the most common way of managing containers). Maybe it's what I'd do in a larger operation. For my personal use I find it the most pragmatic to just use Docker since it's reasonably well documented, has reasonably low friction in usage and is very easy to set up.