I've experienced a number of 'goes up and dissapears' too
Sometimes my theme doesn't save all the components in the theme.
Sometimes doing things like grouping objects results in whole sets of objects being deleted without them being directly related to what was grouped.
Scripts have refused to save changes until the theme is saved and the changes are remade, then they stick.
During renaming, setting parents, and grouping procedures, sometimes an object will 'lose' it's script completly.
I cannot reproduce these problems, but they occur randomly. If a script is refusing to hold changes, it can be reproduced indefinitly until the theme is resaved.
DX3 v3.00.041