The Geoprocessing tab on the Options dialog box provides options related to the geoprocessing tools, models, and scripts that you run in ArcGIS Pro. To access the Geoprocessing options, follow these steps:
- From an open project, click the Project tab on the ribbon, or, from the ArcGIS Pro start page, click Settings in the lower left corner.
- In the list on the left, click Options.
- On the Options dialog box menu, under Application, click Geoprocessing.
Alternatively, on the Analysis ribbon tab, in the Geoprocessing group, click the Options dialog box launcher 
.
Allow geoprocessing tools to overwrite existing datasets
This option controls whether geoprocessing tools can overwrite existing data, layers, or files when run. When it is checked (the default is checked), a warning is displayed for any output parameter referencing existing data, but the tool can execute and overwrite the output dataset. When it is not checked, using an existing dataset path for an output parameter will raise an error, preventing you from executing the tool and overwriting the existing data.
Display disabled parameters
This option controls whether geoprocessing tool parameters that are disabled will be displayed or hidden. When this option is not checked (not checked is the default), tool parameters that are disabled will be hidden. When it is checked, disabled parameters will be displayed in a grayed-out read-only state until the parameter is enabled, which typically happens through the tool's internal validation routine.
Remove layers that reference data overwritten by geoprocessing tools
This option controls whether layers in a map will be removed if their source datasets are deleted by a geoprocessing tool that overwrites output. When it is checked (the default is checked), layers with a data source that is overwritten will be removed and a new layer that references the new dataset will be added to the map. When it is not checked, layers will remain as is in the map, unless the data type or shape type (point, line, or polygon) of the data changes.
Add output datasets to an open map
This option controls whether output datasets created by geoprocessing tools should be automatically added to an open map. When it is checked (the default is checked), output datasets will be added to an open map. When it is not checked, output datasets will not be added to an open map.
Analyze script and model tools for ArcGIS Pro compatibility
This option controls whether script and model tools are run through a compatibility-checking routine. When it is checked (not checked is the default), model and script tools will be checked for compatibility with ArcGIS Pro to ensure the tool can run successfully. If the model or script tool contains reference to a data format or tool that is no longer supported, an error message is returned.
You can use the Analyze Tools For Pro geoprocessing tool to manually perform the same compatibility check.
Learn more about geoprocessing tools that are not supported in ArcGIS Pro
Script editor
The Script Editor determines which application or Python integrated development environment (IDE) is used to edit Python script tools and Python toolboxes. When you right-click a script tool or Python toolbox and select Edit, this application will open.
Note:
The Script Editor is not used for debugging script tools, only for editing the script tool source file.
Logging
These options control how geoprocessing operations are logged.
Write geoprocessing operations to XML log file
This option controls whether information about all the geoprocessing tools you run is written to an external log file. The log file is an .xml file stored in %APPDATA%\ESRI\ArcGISPro\ArcToolbox\History.
Write geoprocessing operations to dataset metadata
This option controls whether geoprocessing tool input and output datasets' metadata is updated to include the tool name, parameters, when the tool was run, and other information.
Note:
The Geoprocessing History section of dataset metadata can be viewed in the FGDC metadata style.
ModelBuilder Options
Do not show warning when overwriting model from previous version
When you edit a model in ArcGIS Pro that was created in a different ArcGIS Desktop application, the model is automatically upgraded to an ArcGIS Pro version when you save the model. In this scenario, a warning message appears, allowing you to continue overwriting the model or cancel the operation. This option allows you to disable the warning message.
Learn more about ModelBuilder compatibility and saving in ArcGIS Pro
R-ArcGIS Support
These options give you the ability to install the R-ArcGIS bridge, check or update your current installation, or switch R home directories. Click the information button 
to go to the R-ArcGIS community, where you can learn more.
Detected R home directories
After you have installed R, you can select the installation or home directory of R to use to execute your R script tools. You can select from a list of automatically detected home directories, or browse to select a location on disk.
arcgisbinding package
If you've selected a valid R home directory, this option checks for the presence of the R-ArcGIS integration package, arcgisbinding, in the home directory.
- If arcgisbinding is found, you can check for updates, download the latest version, and update from a file.
- If arcgisbinding is not found, you are presented with a warning and options to download and install the package.