diff --git a/include/sway/server.h b/include/sway/server.h
index 6cef2e58..70bde6d4 100644
--- a/include/sway/server.h
+++ b/include/sway/server.h
@@ -48,8 +48,6 @@ struct sway_server {
 
 	list_t *transactions;
 	list_t *dirty_containers;
-
-	list_t *scratchpad; // struct sway_container
 };
 
 struct sway_server server;
diff --git a/include/sway/tree/layout.h b/include/sway/tree/layout.h
index 5a78fd58..7d7da2d7 100644
--- a/include/sway/tree/layout.h
+++ b/include/sway/tree/layout.h
@@ -35,6 +35,8 @@ struct sway_root {
 
 	struct wl_list outputs; // sway_output::link
 
+	list_t *scratchpad; // struct sway_container
+
 	struct {
 		struct wl_signal new_container;
 	} events;
diff --git a/sway/commands/scratchpad.c b/sway/commands/scratchpad.c
index 8a529cb4..ccc07c87 100644
--- a/sway/commands/scratchpad.c
+++ b/sway/commands/scratchpad.c
@@ -2,7 +2,6 @@
 #include "sway/commands.h"
 #include "sway/config.h"
 #include "sway/scratchpad.h"
-#include "sway/server.h"
 #include "sway/tree/container.h"
 
 struct cmd_results *cmd_scratchpad(int argc, char **argv) {
@@ -14,7 +13,7 @@ struct cmd_results *cmd_scratchpad(int argc, char **argv) {
 		return cmd_results_new(CMD_INVALID, "scratchpad",
 				"Expected 'scratchpad show'");
 	}
-	if (!server.scratchpad->length) {
+	if (!root_container.sway_root->scratchpad->length) {
 		return cmd_results_new(CMD_INVALID, "scratchpad",
 				"Scratchpad is empty");
 	}
diff --git a/sway/criteria.c b/sway/criteria.c
index 6af97d5b..c2e9c07e 100644
--- a/sway/criteria.c
+++ b/sway/criteria.c
@@ -227,8 +227,9 @@ list_t *criteria_get_views(struct criteria *criteria) {
 		criteria_get_views_iterator, &data);
 
 	// Scratchpad items which are hidden are not in the tree.
-	for (int i = 0; i < server.scratchpad->length; ++i) {
-		struct sway_container *con = server.scratchpad->items[i];
+	for (int i = 0; i < root_container.sway_root->scratchpad->length; ++i) {
+		struct sway_container *con =
+			root_container.sway_root->scratchpad->items[i];
 		if (!con->parent) {
 			criteria_get_views_iterator(con, &data);
 		}
diff --git a/sway/scratchpad.c b/sway/scratchpad.c
index e1f931a4..1e836e7d 100644
--- a/sway/scratchpad.c
+++ b/sway/scratchpad.c
@@ -16,7 +16,7 @@ void scratchpad_add_container(struct sway_container *con) {
 		return;
 	}
 	con->scratchpad = true;
-	list_add(server.scratchpad, con);
+	list_add(root_container.sway_root->scratchpad, con);
 
 	struct sway_container *parent = con->parent;
 	container_set_floating(con, true);
@@ -32,9 +32,9 @@ void scratchpad_remove_container(struct sway_container *con) {
 		return;
 	}
 	con->scratchpad = false;
-	for (int i = 0; i < server.scratchpad->length; ++i) {
-		if (server.scratchpad->items[i] == con) {
-			list_del(server.scratchpad, i);
+	for (int i = 0; i < root_container.sway_root->scratchpad->length; ++i) {
+		if (root_container.sway_root->scratchpad->items[i] == con) {
+			list_del(root_container.sway_root->scratchpad, i);
 			break;
 		}
 	}
@@ -104,7 +104,7 @@ static void scratchpad_hide(struct sway_container *con) {
 	if (con == focus) {
 		seat_set_focus(seat, seat_get_focus_inactive(seat, ws));
 	}
-	list_move_to_end(server.scratchpad, con);
+	list_move_to_end(root_container.sway_root->scratchpad, con);
 }
 
 void scratchpad_toggle_auto(void) {
@@ -138,8 +138,9 @@ void scratchpad_toggle_auto(void) {
 
     // Check if there is a visible scratchpad window on another workspace.
     // In this case we move it to the current workspace.
-	for (int i = 0; i < server.scratchpad->length; ++i) {
-		struct sway_container *con = server.scratchpad->items[i];
+	for (int i = 0; i < root_container.sway_root->scratchpad->length; ++i) {
+		struct sway_container *con =
+			root_container.sway_root->scratchpad->items[i];
 		if (con->parent) {
 			wlr_log(WLR_DEBUG,
 					"Moving a visible scratchpad window (%s) to this workspace",
@@ -150,10 +151,11 @@ void scratchpad_toggle_auto(void) {
 	}
 
 	// Take the container at the bottom of the scratchpad list
-	if (!sway_assert(server.scratchpad->length, "Scratchpad is empty")) {
+	if (!sway_assert(root_container.sway_root->scratchpad->length,
+				"Scratchpad is empty")) {
 		return;
 	}
-	struct sway_container *con = server.scratchpad->items[0];
+	struct sway_container *con = root_container.sway_root->scratchpad->items[0];
 	wlr_log(WLR_DEBUG, "Showing %s from list", con->name);
 	scratchpad_show(con);
 }
diff --git a/sway/server.c b/sway/server.c
index 916e6b71..89dfbf8c 100644
--- a/sway/server.c
+++ b/sway/server.c
@@ -126,8 +126,6 @@ bool server_init(struct sway_server *server) {
 	server->dirty_containers = create_list();
 	server->transactions = create_list();
 
-	server->scratchpad = create_list();
-
 	input_manager = input_manager_create(server);
 	return true;
 }
@@ -137,7 +135,6 @@ void server_fini(struct sway_server *server) {
 	wl_display_destroy(server->wl_display);
 	list_free(server->dirty_containers);
 	list_free(server->transactions);
-	list_free(server->scratchpad);
 }
 
 bool server_start_backend(struct sway_server *server) {
diff --git a/sway/tree/layout.c b/sway/tree/layout.c
index af37611f..a2be0ef3 100644
--- a/sway/tree/layout.c
+++ b/sway/tree/layout.c
@@ -42,6 +42,7 @@ void layout_init(void) {
 	wl_list_init(&root_container.sway_root->xwayland_unmanaged);
 	wl_list_init(&root_container.sway_root->drag_icons);
 	wl_signal_init(&root_container.sway_root->events.new_container);
+	root_container.sway_root->scratchpad = create_list();
 
 	root_container.sway_root->output_layout_change.notify =
 		output_layout_handle_change;