Senior/Principal Process Engineer - API External Manufacturing Small Molecule

Job ID: R-105422Company: LillyLocation: Indianapolis, Indiana, United States of AmericaJob Type: Full TimeCategory: EngineeringPosted Date: 2026-07-28At Lilly, the work is demanding because patients are waiting. We unite caring with discovery to help make life better for people around the world, knowing that every decision, every detail, and every day matters. Headquartered in Indianapolis, Indiana, our over 50,000 employees around the globe take on complex challenges to discover and deliver life-changing medicines, strengthen how health is understood and managed, and support the communities we serve. This is hard, urgent, selfless work—but it’s work worth doing. If you’re driven by purpose and ready to bring your best to work that truly matters for patients, we invite you to join us. Position Brand Description: The position of API EM Engineer [Synthetic Peptide Synthesis and Purification] reports to the API EM Engineering Associate Director and provides technical leadership and expertise in conjunction with API EM contract manufacturer personnel in the reliable supply and commercialization of medicines with safety first and quality always by: Developing and sustaining process knowledge in order to ensure the execution of the appropriate product, process, and operational control strategy at a number of Contract Manufacturers (CMs)Direct and Indirect interaction with CM personnel to ensure reliable supply via the CM execution of the operational control strategyFUME assessment to ensure an understanding of risk presented to the operational control strategyParticipation with internal or CM resources in the equipment specification, procurement, and IQ/OQ/PQParticipation with internal and CM resources to assess the HSE and PSM elements of the CM that impact Lilly productsEngaged with internal and external resources in developing capabilities with new or evolving technologies that may impact delivery of internal or external portfolio assets.Adherence to the expectations of the Lilly Red Book when carrying out interactions with API EM’s CMs.Key Objectives/Deliverables:Coach and Mentor Process Team MembersUtilize past experiences with unit operation control to provide insight and feedback to members of the CM Joint Process Team (JPT).Champion the application of statistical thinking and use of data to monitor process performance and make engineering decisions with CM members of the JPT.Support and peer review root cause analysis around FUME and operational incidents.Peer review documentation of learning points, technical studies, and incident investigations.Scale‑Up & Tech TransferLead/support tech transfers and scale‑up from development through PV and commercial supply.Translate process intent into operating strategies, equipment fit/gap, batch documentation, and PV readiness at CMs.Support engineering runs and PV readiness through parameter optimization and performance trending.Develop and Sustain Process KnowledgeIdentify process knowledge gaps that impact equipment and process capability.Develop or support the capture of key process knowledge (examples include material and energy balances, kinetics, chemistry, process modeling, and equipment design basis).Enable the development and maintenance of process knowledge. infrastructure such as key models, report history, lab models, and literature.Utilize optimization resources and tools for process analysis and process improvement studies.Review and track key process engineering metrics.Provide Process & Equipment SupportIdentify systemic issues affecting production and reliable supply from CMsLead or participate in root cause analysis and countermeasure development and implementation for major safety, quality, or throughput incident investigations. Perform reviews of incident documentation for technical accuracy.Review and approve documentation and engineering decisions.Process Optimization & Continuous ImprovementSupport development and technical analysis for on-going continuous improvement activities.Review and identify cost reduction opportunities, as well as process capacities and bottlenecks. Assist in prioritization of opportunities with respect to overall business objectives.Work with the CMs to ensure the application of statistical thinking and methods to understand process variability and capability.Perform and promote optimization of unit operation cycle time, loading, and yield performance.Engage with late phase development and Engineering Technical Center resources to ensure staying contemporary with key engineering disciplines and developing portfolio platforms (e.g. continuous manufacturing operations).Equipment Capability and Asset ManagementCreate an appropriate methodology to ensure visibility of the ongoing state of qualification of key FUME systems at the CMs.Review equipment and process system user requirements and qualification plans to ensure that the equipment and systems are appropriate for the intended purpose.Act as customer representative for review of Contact Manufacturer (CM) requests for capital projects targeted at both short and long term needs.Oversight of HSE and PSMServe as the liaison for API EM and Global HSE on health, safety, and environmental (HSE) and process safety management (PSM) oversight at the relevant contract manufacturing sites.Leverage internal Lilly experts in HSE and PSM to ensure appropriate risk reduction at CMs.Participate in Lilly HSE and PSM audits of contract manufacturing sites as applicable.Maintain key HSE and PSM metrics for review within API EM. Adherence to Business, Quality, and Financial SystemsUnderstand and follow all applicable Lilly policies and procedures with respect to interactions and oversight of API contract manufacturing sites. These include but are not limited to: Financial Responsibility and Reporting (FRAP); Lilly Red Book; Lilly contract manufacturing standards; Lilly engineering standards, and Lilly Quality policies and best practices.Basic Requirements:Bachelor of Science degree in Chemical Engineering, or another engineering discipline with 5 years chemical manufacturing experience.3+ years of work experience in a manufacturing/process engineering related to peptides or small moleculesDemonstrated experience in scale‑up and/or technology transfer (internal plant or external CMO).Qualified applicants must be authorized to work in the United States on a full-time basis. Lilly will not provide support for or sponsor work authorization or visas for this role, including but not limited to F-1 CPT, F-1 OPT, F-1 STEM OPT, J-1, H-1B, TN, O-1, E-3, H-1B1, or L-1.Additional Preferences:Experience with SM and/or peptide unit operations and purification/isolation steps relevant to drug substance manufacturing.Experience in typical unit operations for API Manufacturing manufacturing.Deep technical knowledge of API / Drug Substance manufacturing equipment and unit operations.Demonstrated ability to apply fundamental chemical engineering principles to process understanding, problem solving, and process improvement.Demonstrated ability to function in a team environment as a technical leader and as a member of teams.Demonstrated ability to manage and prioritize competing priorities and to appropriately communicate verbally and in writing to various audiences.Develop and implement innovative approaches to problemsProcess Hazard Analysis experienceSuccessful application of root cause analysis and systematic problem solvingStrong Computer skills in a variety of software packages ( e.g Batch Plus, JMP, Visio, Aspen, Dynochem, OSI PI, MS Office Suite).Visualize an operation/process and reflect it in a model.Other Information: The normal schedule for this position is Monday-Friday, 8 hours/day. However, teleconferences may routinely occur outside of these hours due to the time zones of contract manufacturers. OUS travel may routinely be required to support process start-ups, troubleshooting, and commercial manufacturing. This travel is typically in the range of 15% to 25% annually, depending on the needs of the process(s). Must complete assigned training curriculum.No certifications required.Tasks require entering manufacturing and laboratory areas and will require wearing appropriate PPE.Lilly is dedicated to helping individuals with disabilities to actively engage in the workforce, ensuring equal opportunities when vying for positions. If you require accommodation to submit a resume for a position at Lilly, please complete the accommodation request form () for further assistance. Please note this is for individuals to request an accommodation as part of the application process and any other correspondence will not receive a response.Lilly is proud to be an EEO Employer and does not discriminate on the basis of age, race, color, religion, gender identity, sex, gender expression, sexual orientation, genetic information, ancestry, national origin, protected veteran status, disability, or any other legally protected status.Our employee resource groups (ERGs) offer strong support networks for their members and are open to all employees. Our current groups include: Africa, Middle East, Central Asia (AMECA), Black Employees at Lilly (View email address on click.appcast.io), Chinese Culture Network (CCN), EnAble, Evolve, Lilly Indian Network (LIN), Organization of Latinx at Lilly (OLA), Pride (LGBTQ+ Allies), Veterans Leadership Network (VLN) and Women’s Initiative for Leading at Lilly (WILL).Actual compensation will depend on a candidate’s education, experience, skills, and geographic location. The anticipated wage for this position is$66,000 - $171,600Full-time equivalent employees also will be eligible for a company bonus (depending, in part, on company and individual performance). In addition, Lilly offers a comprehensive benefit program to eligible employees, including eligibility to participate in a company-sponsored 401(k); pension; vacation benefits; eligibility for medical, dental, vision and prescription drug benefits; flexible benefits (e.g., healthcare and/or dependent day care flexible spending accounts); life insurance and death benefits; certain time off and leave of absence benefits; and well-being benefits (e.g., employee assistance program, fitness benefits, and employee clubs and activities).Lilly reserves the right to amend, modify, or terminate its compensation and benefit programs in its sole discretion and Lilly’s compensation practices and guidelines will apply regarding the details of any promotion or transfer of Lilly employees.#WeAreLillySkillstechnology transferprocess safety managementstatistical analysisprocess optimizationtechnical leadershipprocess hazard analysisstakeholder managementequipment qualificationapi manufacturingunit operationschemical engineeringequipment designhse compliancescale-upcomputer skills (batch plus, jmp, visio, aspen, dynochem, osi pi, ms office suite)batch processingprocess engineeringcontinuous improvementprocess modelingdrug substance purification