Other than the site Moderators, Apple neither monitor nor participate here. As such, if you hope to reach Apple through these forums, you will be disappointed. Apple does however invite submission of comments and feedback via its Product Feedback portal. For iPad and iPadOS:
Feedback - iPad - Apple
Clearly it is inevitable that adding a case to an iPad will always add a little bulk - but so would adding built-in storage for an Apple Pencil that is in almost all cases thicker than the iPad itself.
Unlike the plastic stylus of Samsung devices, an Apple Pencil is an active device that contains electronic components and a battery. Consider that an iPad has no empty internal space to house any kind of stylus - and as such the iPad would have to be made larger (or its battery reduced in size and capacity) to accommodate internal storage.
Assuming that you have a recent iPad Pro, the OtterBox cases marketed by Apple really do not add excessive bulk, but do add additional physical protection and captive Pencil storage.
Some other third-party option can add considerable bulk where they are intended for use in harsh environments - or situations where substantial drop or screen protection is warranted.