Pendolino driving vehicles are 25m long, while the intermediates are 24m. Since the extra length in the driving vehicle consists of the driving cab beyond the bogie, wouldn't that mean most, if not all, of the clearance works for IEP services would have been done already? The 26m Mk5 profile has been the standard for new build and reconstructions for a while so it can't be too difficult. As said before, Carlisle to Carstairs must be done for the East Coast diversions anyway, so the total amount of extra works that could be needed is going to be reduced again.
If LNWR have got Alstom to agree to build just four new 6-car Pendolino units, requiring the design to be fully upgraded for the modern safety standards, then Alstom clearly think there's a market for more of them. TransPennine Express seems to do fine with having a separate small fleet of quite different trains to run the Scotland-Manchester Airport service, so it looks like they could cope with a similarly-sized fleet of new Pendolinos which would never cross the Pennines. Maintenance and servicing would be easy with the Alstom maintenance centre at Longsight and stabling at Polmadie. Platform lengths on the WCML wouldn't be an issue, and with the rebuild of Oxford Road there would be at least 200m available all the way so a standard 8 car set (like how the 390s were originally delivered to VTWC) would be able to run. The current trains are already pretty busy and demand is just going to increase if 'proper InterCity trains' are used rather than glorified commuter trains. Offer some cheap advance fares and/or market Manchester Airport as another option for Central Belt holidaymakers and I'm sure the extra lease and track access costs of a Pendolino could be paid for.