As for the admirals logia intangibility, in cross universe battles there should be some common rules, e.g. chakra being able to replicate the properties of Haki when it comes to touching a logia's body. Otherwise mixing different verses doesn't make sense, if the only counter to an ability exists in verse.
As for Kizaru's lightspeed, yes, it will be troublesome for most, but at the same time, speed is a common inconsistency in fiction. We know that Haku could move at lightspeed through his mirrors as per the Databooks, yet Sasuke with his newly acquired two tomoe Sharingan could start reacting to it. We also know that pre skip characters without CoO could react to light beams from mid range. So prime Uchiha with Mangekyou Sharingan should be able to somewhat react to Kizaru.
Genjutsu would be troublesome for One Piece characters (that is again, if we establish common rules where Genjutsu works just as fine against individuals without Chakra). You could argue that - depending on the strength of the Genjutsu - strong CoC could break it, but Uchiha happen to have peak Genjutsu, while CoC isn't exactly the admirals niche. Tsukuyomi in particular would be deadly, as it is instant.
Also, what does base Madara mean? His original EMS version? I think in terms of AP and defense, the perfect Susanoo actually edges out. One swing of its sword can already slice through a mountain range.
This attack power:
with a single swing (notice how the shockwave keeps travelling through the landscape after cutting the mountains), is quite crazy. It would also prove quite difficult for the admirals to crack his defense. We know the ribcage of Sasuke's Susanoo could already withstand being covered in lava (albeit melting a bit), now take a perfect Susanoo that is like, how tall? 200 meters? How do you crack that defense. Akainu's lava won't do it, Aokiji's freezing won't either. Aramaki's wood would be outmatched too. Fujitora's gravity is cute. Only Kizaru would have a shot with his barrage of beams and even then, the perfect Susanoo should be just too tanky.
Likewise, Itachi's Susanoo should be quite tricky to deal with, given the Yata Mirror blocks anything (apart from having its own, formidable defense) and the Totsuka Blade, that seals away anything.
That being said, the Uchiha will have to hard carry the Akatsuki. The other Akatsuki won't be a match. The Uchiha with their combination of powerful Genjutsu, Susanoo and intangibility would more or less be the only ones relevant.