Most MDO problems currently do not include manufacturing as an optimization domain. Within the H2020 project AGILE 4.0 the intent is to bring manufacturing into the MDO domain using MBSE techniques developed within the project. To demonstrate how manufacturing can be brought into the MDO domain application cases are set up that resemble MDO problems from industry. In this paper, the MDO techniques will be used for the design of a Flap for a regional jet. The manufacturing aspect is represented by including the manufacturing cost of the flap in a Design Of Experiments (DOE). In this DOE different flap kinematic mechanisms and different flap sizes and paths are explored. The DOE is set up using the MDO toolset developed within AGILE 4.0. It allows for an automatic definition of the DOE workflow. The DOE results show that the choice of flap configuration has a significant effect on the Flap manufacturing cost, the flap wright and the landing performance of the aircraft. Next steps will be to investigate more flap configurations, improved the manufacturing cost model used and to set up a true flap optimization.