Today HubSpot does not support change of the order for Line Items to show up on Quote. They will show up in the order they were added. As business grow, or change focus, it is of course nescessary for us as a HubSpot user to be able to re arrange our Line Items in the order we prefer. Please look into this and make sure You will develope something that will make our lives easier. Thank You!
Updating this idea to say that we’re planning on supporting this in the new CPQ Quotes experience in Commerce Hub. Thanks for submitting this idea!
Hi everyone! My name is Hallie, and I’m a Program Manager on the CXM Team. Nicoline shared that this is In Development! Please keep an eye out here for future updates. 
We’ve now added the ability to change the order of the line items in our new Quotes editor. To do so, go to the Line Items section > Items tab and drag and drop the order of the line items. Let me know if there are any questions or feedback on this improvement!
My quote template editor does not show these features. Is there a way to fix that?