In the paradigm of realpolitik, leaving NATO to join the WTO does not necessarily indicate an Italian desire to immediately enter into a shooting war with the U.S.A. Neither does aligning with the WTO indicate a radical ideological shift. It serves a more practical purpose.
If canon's description of Italy's military operations is any indication, their interests were much more localized; Italy spends most of the war attempting to annex nearby territory (mostly from Austria). Joining the WTO doesn't necessarily indicate an ideological realignment, rather it can be seen as an Italian ploy to secure protection from potential NATO reprisals for local land grabs by putting Italy under the U.S.S.R. nuclear umbrella.
Therefore, I think that Italy would have allowed the evacuation of "joint" nukes instead of aggressively trying to nationalize them and defend them by force. They lose more than they gain by trying to seize/maintain control of American nukes. As a WTO, a nuclear deterrent already exists.
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