You can place your project phases in any order you want. You can do so by selecting the main or parent project in the Projects screen and then going to Project Center > Structure tab. All its phases are listed in the grid. You can click and hold on the blue cross icon on the left side of the project phases and then drag them to the proper place, as required. BQE CORE saves this setting for you.
You can also choose the preferred naming format (display name) for your projects and project phases from the Settings > Projects > General panel.