Job Titles are incredibly subjective (I work in HR and my hiring/operational managers try to give people random job titles that have nothing to do with their job responsibilities all the time). I believe Canada is aware of this and that's why they have the NOC Code system.
My understanding is that it's the JOB FUNCTIONS AND DUTIES that matter, not the job title, because of the subjectivity of assigning titles. Choose the NOC Code that matches your job responsibilities, regardless of the job title.
My job title is also under the exclusion list for my true NOC Code (based on the job functions and responsibilities) but that's because, based on Canada's assessment, I have the 'wrong' job title (based on a review of the responsibilities and functions). Look at the description for your job title that's on the exclusion list - if your functions and responsibilities don't match it, then that's not your job, regardless of the title.
If it really concerns you though, attach an LOE (letter of explanation) pointing to the fact that your job functions (as outlined in your employment reference letters) match the NOC code you selected, and asking that they disregard the job title to prevent any confusion.