Repair and seal roof penetrations, tears, open seams, etc. using Elastek 103 Crack & Joint Sealant and reinforce with polyester roof fabric as necessary. In larger or deep ponding areas, apply Elastek 500 Puddle Plaster to fill in areas that hold water. Avoid using plastic roof cement. Serious ponding should be referred to a roofing contractor. Blisters in previous coatings may be opened but these areas must be allowed to dry-out completely. Blisters in the roofing ply should be left alone unless likely to break. Caulk and reinforce open seams, roof penetrations, cracks, and tears. These are potential leak points so work carefully and thoroughly. Use fabric to build flashings around roof edges or roof penetrations, and to reinforce various coating repairs. A polyester fabric is used because it will stretch with the coatings. (Fiberglas fabric is not recommended.) Fabric is normally cut to extend three inches beyond the repaired area in all directions. The coating is applied to the roof surface and the fabric is immediately pushed into the wet surface. An additional coat is applied over the fabric and the patch is allowed to dry. If your roof has stucco parapets, examine them for cracks along the sides and top. These areas often permit water to enter the wall and can cause blisters and wrinkles in the roof surface. Repair with Elastek 103 Crack & Joint Sealant. If you do not have parapets, examine the metal drip edge for a tight seal with the roof membrane. Use 4″ or 6″ roofing fabric covered under and over with Crack & Joint Sealant to seal cracks along drip edges, penetrations, and open seams.

OK, Peter, I finally went back and read Alex Wilson's article on what he perceives as a serious problem. I haven't seen the full report, but based on the summary he wrote on the Green Building Advisor website, I question the science. It seems to me that he's chosen the wrong metric and he's basing his conclusion on too many assumptions because he doesn't have enough data. You can see my comments at the end of his article.
We are turning our roof into an unvented roof assembly by raising the roof and blowing in SPF. We are planning to leave the existing vapor barrier down but remove the fiberglass batting and then adding 6" of SPF in all the cavities, to completely seal and insulate the house. Should we have any concerns about doing it "upside down" and not spraying the foam directly to the underside/sheathing of the roof? 

Global warming potential (GWP), as defined by the EPA, is a measure of how much energy the emissions of 1 ton of a gas will absorb over a given period of time, relative to the emissions of 1 ton of carbon dioxide (CO2).  Spray foam insulation products that use water as the blowing agent - typically open-cell foam however Icynene’s ProSeal Eco is a 100 percent water blown closed-cell spray foam – have a global warming potential of 1, the lowest possible number.  This is because water in the mixture reacts during the application process to release carbon dioxide and heat. The GWP of the blowing agent is that of carbon dioxide. Carbon dioxide has a GWP of 1.
Was hesitant to buy this product because of some of the reviews but glad I did. It does just what it says and we even got the square footage out of it. You just need to read ALL the directions first and it wouldn't hurt to read some of the helpful hints in some of the reviews. It does only cover 1 inch at 600 square feet and is extremely easy to apply. Very satisfied customer! http://www.youtube.com/watch?v=ggLAUsiuI_o&feature=youtu.be
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If your foam pulled away just a little bit, Jamie, and they were able to fix it with just a little bit of touching up, then it wasn't as bad as the house where I saw this problem. As the last photo above shows, it had pulled away significantly from the studs and rafters, and it was all over the house. This was closed cell foam, and interestingly, it didn't pull away from the horizontal framing members, just the vertical and sloped ones. They did some touch up, but that wasn't enough. I don't know how this one ended up getting resolved. I think maybe the contractor came back and sprayed cellulose on top of the foam.

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