An “embedded” research approach aims to inform programme improvement and has the potential to facilitate more interactive horizontal engagement and knowledge co-production. Concurrently, this approach demands negotiating relationships with institutions and individuals. The purpose of this chapter is to identify the values, opportunities and challenges of conducting embedded research with allied health professionals, drawing from our experience assessing the Health On the Go (Salud Al Paso) Program in Quito, Ecuador. The analysis shows that an embedded research approach requires supporting personnel to become partners, and as staff members become co-creators of knowledge, researchers have less vertical control over the study. Conducting research with health personnel may be stimulating for them when their opinions are valued and may help them reflect on their own practices. Furthermore, it may also demonstrate the importance of jointly assessing a health promotion initiative. Qualitative techniques, such as focus groups, may be useful for participants to contrast their perceptions and opinions with those of their colleagues. It is important to follow a three-step process: (1) developing a relationship of trust by being transparent, (2) being flexible when engaging and communicating with decision-makers and (3) co-producing knowledge while remaining continuously reflexive on potential biases.