Morrisons supporters outside the council chamber at Christchurch
A three-hour planning meeting last Thursday saw plans for the food store, which would have created 300 supermarket jobs, refused by councillors at Christchurch council.
If it had been approved, the proposal would have allowed the Christchurch-based company to relocate to premises at Bournemouth Airport, expanding their staff and modernising their premises.
In a statement on Bournemouth Echo's website, John Taylor, managing director of Beagle Technology said: "Firstly may I thank the majority of readers for their support.
"Whilst we are disappointed by the result it is only one stage of a longer process and we remain committed to Christchurch and delivering our scheme."
Mr Taylor praised employees for turning the company around after the strategic defence review in 2010 retired the Harrier from service. He added: "The Harrier support contract counted for half of sales that Beagle sold.