Not all petitions will require all fees.
An employer will only need to pay the lottery registration fee when, as a cap-subject employer, they first enter a potential H-1B employer in the lottery. This fee doesn’t apply to exensions or amendments for an existing employee, or a petition for a new hire already on an H-1B.
Some of these fees drop off after multiple petitions. – the Fraud Detection and Prevention Fee goes away for the second same-company/same-beneficiary petition (extension or amendment), the Education/ACWIA fee for the third.
Certain employers are exempt from the Education/ACWIA fee entirely, such as government research institutions, primary or secondary schools, nonprofits engaged in clinical training, or those filing to correct an earlier USCIS error. Petitions seeking amendment without requesting additional time past the expiration of the last petition are also exempt from the Education/ACWIA fee,
Many employers will never need to pay the Dependency Fee simply because they never approach a qualifying proportion of H-1B workers; as long as the total H-1b or L-1 workers aren’t half of all employees an employer will not need to pay this fee no matter how many employees they have, and no employer with 49 or fewer employers would need to pay it regardless of the proportion of H-1B or L-1 employees.
Of course, the premium processing fee is optional.