1)
Why does it say "Shilchu va'Esh Mikdashecha"?
1.
Radak: It is as if it says Shilchu Esh b'Mikdashecha (they set the Mikdash on fire), like "v'Es ha'Ir Shilchu va'Esh" (Shoftim 1:8).
2)
What does "Mishkan Shemecha" refer to?
1.
Malbim: The Aron and Klei ha'Kodesh.