Using SDK2 and trying to "Build & Publish" causes a popup to appear asking to reload the current scene. The default option is Reload. If you select reload, the build process halts and Unity enters playmode. If you press ignore, it attempts to upload as usual. Please fix this to prevent the popup, allowing upload just from hitting the build and publish button.
Tested using a project with just the VRCSDK and attempting to upload the example trigger scene.