The chances of a fall-out/non-bonding would be very low and mainly due to mummy-sow being extremely traumatised. In that case time will hopefully be a healer.
What you have to brace yourself for is some pretty drastic dominance behaviour, which is very normal as weaned youngsters are very firmly put in their place at the bottom of the group once the special protection mum and pups enjoy during the nursing period has finished. Mothers will also do this to their own babies, so even though it will be rather dramatic with vocal babies, they are built to accept it. With luck, that period is only very short (just a few days), as the dominance is very clear cut. Please only add hideys with just one exit afterwards.
Guinea pigs have a good memory and can recognise other piggies even after a quite a long gap, but they firstly indentify themselves via the group they are belonging to. That is the one bit that we humans struggle with, as it doesn't parallel with our human wiring which mainly runs via individual and then family identfication.
