QB Issue Resolution:

Yes, each file/company you set up will use a different set of chart of accounts.

Resolution for Issue 'If I set up more than one company is there a new chart of accounts for each company' available: Yes (Solved).
Source: Intuit Community forum.

If I set up more than one company is there a new chart of accounts for each company: this issue or error code is a known issue in Quickbooks Online (QBO) and/or Quickbooks. Support for this issue is available either by self-service or paid support options. Experts are available to resolve your Quickbooks issue to ensure minimal downtime and continue running your business. First try to resolve the issue yourself by looking for a resolution described below. If it is a complex issue or you are unable to solve the issue, you may contact us by clicking here or by using other support options.

Support for Chart of Accounts
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Error Recovery for Chart of Accounts [Canada]
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