I doubt repair is significantly more challenging than scanning and emulation. However it is conceivable that memory loss would be lower with the scan/em method, at least when the tech comes out. In an FAI intelligence explosion event, emulation seems slightly more likely due to conservation of resources. But in the grand scheme of things, a standard human isn't that resource-intensive (compared to e.g. the mass of a planet or a star's total output). I'd say there's a good chance of it going either way regardless of FAI versus incremental tech advancement scenario. Fixating on one or the other seems like a case of burdensome detail to me. Maximizing preservation quality is likely to prove helpful in either situation.