Yes, all my shooting has been done in prone with Harris Bi-pod.
Something has changed to cause your groups to open. It could be a scope problem, if so the only sure way to determine that is to try another proven scope in its place, and see if the problem is resolved. Another thing that could have changed is the ground you were shooting from. Perhaps your good groups were fired from soft ground, but when you returned to the range with the new ammo, the ground had frozen and was hard.
If you are shooting off a hard surface, the rifle could react as if the barrel was placed on a hard surface, and scatter your group. I usually place a pair of work gloves under the bipod feet, which acts as a cushion between the hard surface and the bi-pod, or provides a stabilizing surface if shooting on a sandy surface, so the feet don't dig in.
Do you load the bipod legs by the leaning forward for into them? Doing so exerts uniform support pressure on the rifle from shot to shot. Placing a duffle in front of the bipod legs may also help. If you have to reposition the rifle after each shot to reacquire your sight picture, your position or technique is flawed, and could be the reason for your scattered groups.
Another thing to check is the rifle's bedding, although this seems to be an unlikely culprit since earlier it was shooting well. Certainly though problems can arise if a single shooting session occurred with loose action screws. Remove the rifle from the stock and see if you can see any evidence of it moving within the bedding. You might see shiny spots on barrel or action, or signs of movement or damage in the bedding surfaces, such as marred corners within the bedding or even cracking through the action area or at the tang. Any significant damage to the bedding surfaces indicates that re-bedding is required before the rifle will shoot to it's potential. When you reassemble the rifle, watch for evidence that there is flex in the stock, you might see the barrel rise in the barrel channel as you torque the action screws. Depending on the type of stock you have, the action screws should have between 45-60 inch-pounds of torque. A wood stock should be torqued to the lower value, and a fiberglass stock pillars, to the higher.