It sounds like you haven't damaged them if they're growing nicely and are well greened-up.
Sometimes there are sad reports of new gardeners putting LOTS of fresh, UNcomposted mature and perhaps wood chips into the ground and then planting seeds in that mix.
But it definitely does NOT sound like your situation. Perhaps by the time the roots "find" the previously unfinished compost, the situation will have righted itself.
Sunset Zone 17, USDA Zone 9