I think you are in a rare and interesting situation :)
Most people learn scales as positions on the fretboard, repeated mechanically over and over, often without even having a strong sense of how they actually sound.
And for most people, the challenge is to break out of those muscle-memory patterns, if they want to be able to play anything interesting at all.
For example, a common exercise to that end is to play melodies, scales, improvisations, etc. using only one string. If you are forced to use only one string, you have to rely almost exclusively on your ear and understanding of scale structures, rather than by using those all too familiar box patterns.
But you, apparently, are the exception... :)
Answering your specific question, I'd say that learning the standard 5 positions should do you no harm, but as to how much good it will do, that depends on how well you already can play scales in all keys all over the fretboard, and what are you aiming for.
If you can already pretty much do what you want to do, scale-wise, I would not recommend that you spend much time re-learning the same thing from scratch in another way. Rather, I would suggest you invest that time and energy into serious ear training, perhaps into sight reading, into learning the fretboard, or into developing other areas of your playing that are fundamental to the goals you want to achieve.
On the other hand, is you're still feeling insecure about scales, keys, etc. then it may make sense to learn the 5 CAGED boxes, because that will give you a reliable and dependable system, on which you can build further layers afterwards. And because you already have a good sense of those scales, it shouldn't take you too long to do that.
Perhaps you can test yourself in this regard with this video, see how far you can follow the scales in all keys as the video goes on:
I'd say that the more you can follow (key change every 4 bars? every 2 bars? every bar?) the less you need to bother learning the standard position boxes.