Contract Navy Software Engineer Jobs in Madison, WI

Join a Team Where Engineering Excellence Drives Opportunity

At Affiliated Engineers, Inc. (AEI), we bring together expertise and innovation to solve the most complex challenges. Since 1978, we’ve supported mission-driven organizations in designing systems and environments that advance society and improve lives. Today, with more than 900 professionals across 22 offices, we help shape the future of healthcare, science and technology, energy, education, and other vital sectors.

From elevating patient care in Mayo Clinic’s world-class hospitals to enabling discovery in high-containment laboratories for U.S. agencies and driving environmental progress with Microsoft’s renowned Thermal Energy Center, our work enriches the human experience, safeguards the environment, and pushes the boundaries of possibility.

AEI consistently earns national recognition from leading industry publications, including Building Design+Construction, Engineering News-Record, and Consulting-Specifying Engineer, with distinctions such as being named the #1 Laboratory Engineering Firm in the nation and receiving multiple Best of the Best Project awards, underscoring the lasting legacy of our work.

At AEI, you’ll join a collaborative community where your expertise fuels innovation, your ideas drive progress, and your work helps shape a brighter future.

As a Commissioning Engineer II in our Madison office, you will help us empower our clients to achieve energy-efficient building solutions, save global environments, and create a better, greener future for all.

Why We Need You:

In this role, you will carry out activities related to project construction and contract administration including developing and coordinating system test procedures, organizing user training sessions, administering functional performance tests, conducting field observations, attending progress meetings, and assisting in document control.

Expertise of our most successful Commissioning Engineer II: 

• Bachelor’s degree in mechanical, electrical, or architectural engineering (or another engineering discipline) from an accredited program.
• General understanding of building systems across disciplines and fundamental knowledge in at least one discipline such as HVAC, plumbing/piping, electrical, lighting, instrumentation and controls, or building envelope systems.
• Understanding of applicable design codes, design standards and specification requirements, and ability to interpret them.
• Fundamental knowledge of commissioning processes and commissioning process delivery.
• Proficient in computer operation for engineering calculation programs and ability to learn computer-aided drafting/BIM software for the purpose accessing and interpreting design requirements.
• Commissioning certification with a nationally recognized professional body.
• Valid driver’s license and state required vehicle insurance.
  

Effective skills to help you flourish:

• Experience in combining personal judgment with a wide variety of data and information to perform and evaluate system calculations and design options.
• Ability to work well in a team environment, including carrying out appropriate follow-through with others, delegating work, and giving and receiving constructive feedback. Communicates well with individuals at all levels in the organization and project partners.
• Ability to anticipate project work, and to delegate and balance work for others.
• Ability to access and interpret all types of design and contract instruments including BIM models.
• Ability to apply safety training to specific construction situations and avoid unsafe work environments.
• Experienced in understanding and safely use test and measurement equipment and common tools.
• Passed the Fundamentals of Engineering exam (FE) or the ability to obtain the Professional Engineering license (PE) in one or more states.
• Strong spoken and written communications skills.
• Excellent organization and time management skills.
• Quick technical comprehension and motivation focused on client outcomes.
• Ability to prioritize multiple tasks.
• Effective working individually and within team environments.
  

When you work here, you can expect:

• A flexible, collaborative environment where your well-being matters—because your best work happens when you’re supported.
• Real opportunities to grow—through mentorship, professional development programs, and exposure to high-impact projects across disciplines.
• To collaborate with inspiring teammates who challenge the status quo, foster innovation, and pave the way for future leaders.
• A benefits package that offers health, dental, vision, and retirement, a performance-based year-end bonus, and thoughtful perks tailored to your needs—whether that's a flexible work environment, wellness resources, or community-focused initiatives, we’ll continue to invest in.
  

If this dynamic environment and the chance to contribute to transformative projects resonate with your ambitions, we would love to connect with you. Join us and make an impact!

Apply online at https://aeieng.com/about/careers/

If you know someone who would thrive in this role, please share this posting with them directly via email or through your LinkedIn network.

AEI is proud to be an EEO/AA Employer/Vet/Disabled.