It should not cause a major problem, but ... I think the reason they have you wait is that the initial fitting of the upper deck skin has a fair amount of tension along there and if you pre-countersink before final drilling, you risk damaging the countersunk holes when you apply clecos there. You are going a little deeper there to accommodate a dimple, which leaves less material at the edge of the hole to take those side stresses. Once dimpled, the deck skin dimples help take up that stress, so clecoing for riveting is not as risky.
That said, I don't think the risk is that great and you can do plenty of damage with clecos before countersinking if you are not careful. So just exercise normal care and you should be fine.
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Patrick Kelley - Flagstaff, AZ
RV-6A N156PK - Flying too much to paint
RV-10 14MX(reserved) - Fuselage on gear
http://www.mykitlog.com/flion/
EAA Technical Counselor #5357
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