I think the question is vague.
Native compared to what? Are Electron apps considered native under this paradigm?Native desktop apps have permissions and API access that are generally denied to anything running in a sandbox. On some platforms (Apple) they're also trusted (certified by the hardware or OS manufacturer) to have those perms. Users are generally not competent to decide what permissions to grant applications, and thanks to some major efforts at educating them most users know that, so they prefer apps that are signed and approved and which run "natively". That means there's incentive for developers to continue building native applications.