You'll need to create 2 sets of Export Profiles and Data Settings in this case, where you would do the following:

• configure Custom Filters in each Data Settings based on a specific time range
• set the scheduler in each Export Profile settings to "Daily" at different times

For example, if you want to export at 8:00 AM and 5:00 PM where only new orders are exported (i.e. no duplicate orders), you can do something like this in the Custom Filters section of the Data Settings.

8:00 AM Schedule

To filter data after 5:00 PM the previous day until 8:00 AM the current day:

Data must match: all conditions

• Created At is greater than {{ current_date }}T17:00:00 - 1
• Created At is less than or equal to {{ current_date }}T08:00:00

5:00 PM Schedule

To filter data after 8:00 AM the current day until 5:00 PM the current day:

Data must match: all conditions

• Created At is greater than {{ current_date }}T08:00:00
• Created At is less than or equal to {{ current_date }}T17:00:00

More info here on date and time filtering in Custom Filters.