I totally agree. If you are developing an app for a corporate customer Native may be the obvious choice. But for the purposes of an early stage startup a Web app has so many advantages that it becomes not a matter of choice anymore. From a startup perspective what you really need is testing and validating ideas, trying different things and maintaining the growth as much as possible. Even using things like Phonegap or app store distribution becomes an obstacle for that purpose.

Besides, we don't even prefer native applications on our PCs anymore. MS Office is undoubtedly superior to Google Docs but most of us rarely run Word in these days.