This has been mentioned by many users and, as of yet, has not been addressed.
Here is a suggestion, and what I have done to alleviate this issue.
First create a new page in your Start11 menu, and then create a new Group and name it Pin New Apps, or something to your liking.
Now when you pin a new app, folder, or file to your Start11 menu, select this Group, and then you can resize, as well as, change it's attributes before moving it to the Group or Tab where you want it to reside. You'll need to leave at least one icon in this group to keep it active.
If you want to move the new app, folder, or file to a specific group or page, click and drag it to the page indicator at the bottom of the Start11 menu, and without letting go, drag to the page and group or tab where you want to place it.